DCAR_000678

Resource Type: 
Polypeptide
Name: 
DCAR_000678
Identifier: 
DCAR_000678.mRNA-protein
Sequence: 
MRWTIVLHVLLMCVIFGSSDDSEAEILLDFKKSLSNAGALSNWNEEVSLC
TGDKGNWNGLLCLKGSFFGLRLESMGLSGIIDVESLSKLPYLRTVSFMNN
NFNGPFPGNMNKMSSLRALYLSNNNFSGEIPEDAFKGMNLMRRVYLGNNH
FMGKIPKSLAGLSKLVDLQLQNNKFVGRIPNLKQKDLIANFTNNKLEGPI
PSALSDEPSSSFAGNNLCGAPMAECPPSKKKSVPKVAIIVAAAVAIALAI
IIISSLLLHRQNRSKKRFELQDLLRASAEVLGSGSSGSSYKAILLSGPAV
VVKRYKQMSNVGKAEFYEHMRNLGSLSHPNLLPLVAFYYTKEEKLLINDF
AENGSLASHLHSNPKRNQPRLDWPTRLRIIKGVAKGLEHLYKAFPNLPLP
HGHLKSSNVLLDETFAPLLADYGLVPMMNKEHAHHFMVAYKSPESSQNDH
RLTRKTDVWCLGILILELLTGKFPANYLRQGKGGNADLASWVNSVVREEW
TGEVFDNAMKRTKNAEAEMLKLLKIGMCCCEWNVDRRWDLNEAIAKIDGL
KEGNNDEDQSSYASDGEAYSSKGMTDDEFTFSVTG*
Sequence Length: 
586
Sequence Checksum: 
83f118312d8190dbe63c3d343c2256a2
View location in JBrowse: 
Relationship: 
There is 1 relationship.
Relationships
The polypeptide, DCAR_000678, derives from mRNA, DCAR_000678.
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Blast Results: 
The following BLAST results are available for this feature:
BLAST of DCAR_000678 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Analysis Date: 2021-12-09
Analysis Name: DCAR peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 20
BLAST of DCAR_000678 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5ADI5 (Protein kinase domain-containing protein {ECO:0000259|PROSITE:PS50011})

HSP 1 Score: 728.783 bits (1880), Expect = 0.000e+0
Identity = 378/630 (60.00%), Postives = 455/630 (72.22%), Query Frame = 0
 
Query:   10 LLMCVI--FGSSDDSEAEILLDFKKSLSNAGALSNWNEEVSLCTGDKGNWNGLLCLKGSFFGLRLESMGLSGIIDVESLSKLPYLRTVSFMNNNFNGPFPGNMNKMSSLRALYLSNNNFSGEIPEDAFKGMNLMRRVYLGNNHFMGKIPKSLAGLSKLVDLQLQNNKFVGRIPNLKQKDLI-ANFTNNKLEGPIPSALSDEPSSSFAGNNLCGAPMAECPPSKKK-SVPKVAIIVAAAVAIALAIIIISSLLL------------------------------------HRQNRSKK--------------RFELQDLLRASAEVLGSGSSGSSYKAILLSGPAVVVKRYKQMSNVGKAEFYEHMRNLGSLSHPNLLPLVAFYYTKEEKLLINDFAENGSLASHLHSNPKRNQPRLDWPTRLRIIKGVAKGLEHLYKAFPNLPLPHGHLKSSNVLLDETFAPLLADYGLVPMMNKEHAHHFMVAYKSPESSQNDHRLTRKTDVWCLGILILELLTGKFPANYLRQGKGGNADLASWVNSVVREEWTGEVFDNAMKRTKNAEAEMLKLLKIGMCCCEWNVDRRWDLNEAIAKIDGLKEGNNDEDQSSYASDGEAYSSKGMTDDEFTFSVTG 585
            +  C+I  +G +D  E E LL F+ SL N  AL+NWN+  SLC G+  NW G++C+   F+GL+LE+MGL GIID+ +LS+L  LRTVSFMNN+F GP P       +LR L+LSNN F+GEIP+DAF GM  + +VYL NN F GK+P SLA L KL++L L+NN+F G++P+ +   L   N  NNK EGPIP++LS+  +S F+GNNLC  P+  C  SKKK S+PK+AII+      ALA I+++S L                                     HR+N +KK              RF+LQDLLRASAEVL SGS GSSYKA+LLSGPAVVVKR++QMSNVGK EF+EHMR LGSL+HPNLLPLVAFYY KEEKLLI DF ENGSLASHLHS P  +QP LDWPTRL+IIKGVAKGL +L+K    L LPHGHLKSSNVLLD+TF PLLADY L P++NK+HA   MVAYKSPE +Q D R T+KTDVW LGILILELLTGKFPANYL+QGKG NADLA+WVNSVVREEWTGEVFD  MK TKN E EMLKLLKIGMCCCEWNV+ RWD+ EA  KI+ LKE + DE+ SSY S+G+ YSS+ +T+D+F+FSVTG
Sbjct:    1 MFTCIIVTYGFTD-QEVETLLKFRDSLFNTTALNNWNKS-SLCKGNGSNWTGVICVNDDFYGLQLENMGLKGIIDIGTLSELSSLRTVSFMNNHFEGPIPEIKKLGGALRGLFLSNNQFNGEIPDDAFDGMKSLTKVYLANNTFTGKLPTSLARLPKLLELWLENNQFEGQLPDFRSTALRDVNVANNKFEGPIPASLSNMSASFFSGNNLCDKPLDPCKSSKKKRSIPKIAIILVIVGVAALAAIVLASFLFRGRRRPKTSQMGKSSAAKIHKNDVQYKKAGSAPLPDHRENYNKKSENGKLYFVRNGRERFDLQDLLRASAEVLESGSFGSSYKALLLSGPAVVVKRFRQMSNVGKEEFHEHMRRLGSLTHPNLLPLVAFYYKKEEKLLITDFIENGSLASHLHSKPSPDQPALDWPTRLKIIKGVAKGLAYLHKELSALTLPHGHLKSSNVLLDDTFEPLLADYALAPVVNKDHAQQIMVAYKSPEFTQRD-RTTKKTDVWSLGILILELLTGKFPANYLKQGKGANADLATWVNSVVREEWTGEVFDKEMKGTKNGEGEMLKLLKIGMCCCEWNVETRWDMWEAFEKIEELKERDADEEYSSYGSEGDVYSSRAVTEDDFSFSVTG 627    
BLAST of DCAR_000678 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J0GYC0 ((Leucine-rich repeat protein kinase family protein {ECO:0000313|EMBL:GFZ15524.1}))

HSP 1 Score: 723.391 bits (1866), Expect = 0.000e+0
Identity = 389/634 (61.36%), Postives = 463/634 (73.03%), Query Frame = 0
 
Query:    3 WTIVL-HVLLMCVIFGSSD-DSEAEILLDFKKSLSNAGALSNWNEEVSLCTGDKGNWNGLLCLKGSFFGLRLESMGLSGIIDVESLSKLPYLRTVSFMNNNFNGPFPGNMNKMSSLRALYLSNNNFSGEIPEDAFKGMNLMRRVYLGNNHFMGKIPKSLAGLSKLVDLQLQNNKFVGRIPNLKQKDL-IANFTNNKLEGPIPSALSDEPSSSFAGNN-LCGAPMAECPPSKKKSVPKVAIIVAAAVAIALAIIIISSLLLH-----------------------RQNRS------------------------KKRFELQDLLRASAEVLGSGSSGSSYKAILLSGPAVVVKRYKQMSNVGKAEFYEHMRNLGSLSHPNLLPLVAFYYTKEEKLLINDFAENGSLASHLHSNPKRNQPRLDWPTRLRIIKGVAKGLEHLYKAFPNLPLPHGHLKSSNVLLDETFAPLLADYGLVPMMNKEHAHHFMVAYKSPESSQNDHRLTRKTDVWCLGILILELLTGKFPANYLRQGKGGNADLASWVNSVVREEWTGEVFDNAMKRTKNAEAEMLKLLKIGMCCCEWNVDRRWDLNEAIAKIDGLKEGNNDEDQSSYASDGEAYSSKGMTDDEFTFSVTG 585
            W I+L HV L C +  S D + EA+ LL FK+SLSN  ALSNWNE ++LCTG+  NW GL+CL G+ F L+LE MGL G+I++E+L+KLP LRTVSFMNN F+GP P       +LR L+LS N FSG+IP+DAF GMN +RRVYL NN F GKIPKSLA L +L D  L  N+F G IP+   K+L   N +NN+L GPIP +L +   SSF+GN+ LCG P+  C  SKKK V K+AII+AAAV  ALA III+S +LH                       +QN+                         ++RF+LQDLLRASAEVLGSGS GSSYKA LL+GP +VVKR++ MSNVG+ EF+E+M  LG LSHPNLLPLVAFYY KEEKLLI DF +N SLASHLH     NQP L+WPTRLRII+GVA+GL +LYK FP+L LPHGHLKSSNVLLD+ F PLLADY LVP++NKEHA  FM AYKSPE +Q D   T+KTDVW LGILILE+LTGKFPANYL+QGKGGNADLA+WVNSVVREEWTGEVFD  MK  KN+E EMLKLLKIGMCCCEWNV+RRW L  A+ KI+ LKE ++DED SSYAS+GE YSS+ MTD++F+FSV G
Sbjct:   10 WLILLVHVALTCFVVASGDSEEEAKTLLKFKESLSNDIALSNWNESINLCTGNVSNWKGLICLNGAVFRLQLEGMGLRGMINIEALAKLPSLRTVSFMNNAFDGPMPQVKELGGALRGLFLSGNKFSGDIPDDAFTGMNALRRVYLENNEFTGKIPKSLAELPRLADGWLHGNQFEGEIPDFVSKELRTVNLSNNRLRGPIPDSLQNMSLSSFSGNDGLCGKPLDPCK-SKKKDVAKIAIIIAAAVVAALAAIIIASFILHGRRTQKKQLEQSTAKPYKELANYKQNKEYQSPGHQETYKKSESVKLDFVRNERERFDLQDLLRASAEVLGSGSFGSSYKARLLTGPTMVVKRFRHMSNVGRDEFHEYMIRLGRLSHPNLLPLVAFYYKKEEKLLITDFVKNDSLASHLHGKQNPNQPGLNWPTRLRIIRGVARGLAYLYKEFPSLTLPHGHLKSSNVLLDQNFEPLLADYALVPVINKEHAQQFMAAYKSPEFTQYD-LTTKKTDVWSLGILILEMLTGKFPANYLKQGKGGNADLAAWVNSVVREEWTGEVFDKDMKGRKNSEGEMLKLLKIGMCCCEWNVERRWALTLAVEKIEELKERDSDEDYSSYASEGEMYSSRAMTDEDFSFSVNG 641    
BLAST of DCAR_000678 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2R6PNE8 ((Pollen receptor-like kinase {ECO:0000313|EMBL:PSR93577.1}))

HSP 1 Score: 721.079 bits (1860), Expect = 0.000e+0
Identity = 379/633 (59.87%), Postives = 450/633 (71.09%), Query Frame = 0
 
Query:    3 WTIVL-HVLLMCVIFGSSD-DSEAEILLDFKKSLSNAGALSNWNEEVSLCTGDKGNWNGLLCLKGSFFGLRLESMGLSGIIDVESLSKLPYLRTVSFMNNNFNGPFPGNMNKMSSLRALYLSNNNFSGEIPEDAFKGMNLMRRVYLGNNHFMGKIPKSLAGLSKLVDLQLQNNKFVGRIPNLKQKDL-IANFTNNKLEGPIPSALSDEPSSSFAGNN-LCGAPMAECPPSKKKSVPKVAIIVAAAVAIALAIIIISSLLLHRQNRSKK----------------------------------------------RFELQDLLRASAEVLGSGSSGSSYKAILLSGPAVVVKRYKQMSNVGKAEFYEHMRNLGSLSHPNLLPLVAFYYTKEEKLLINDFAENGSLASHLHSNPKRNQPRLDWPTRLRIIKGVAKGLEHLYKAFPNLPLPHGHLKSSNVLLDETFAPLLADYGLVPMMNKEHAHHFMVAYKSPESSQNDHRLTRKTDVWCLGILILELLTGKFPANYLRQGKGGNADLASWVNSVVREEWTGEVFDNAMKRTKNAEAEMLKLLKIGMCCCEWNVDRRWDLNEAIAKIDGLKEGNNDEDQSSYASDGEAYSSKGMTDDEFTFSVTG 585
            W I+L H  L C +  S D + EA+ LL FK+SLSN  ALSNWNE ++LCTG+  NW GL+C  G+ FGL+LE MGL G+I++E+L+KLP LRTVSFMNN F+GP P       +LR L+LS N FSG+IP+DAF GMN +RRVYL NN F GKIPKSLA L +L    L  N+F G IP+   K+L   N +NN+L GPIP +L +   SSF+GN+ LCG P+  C   KK       II AA VA    III S +L  R+ + K+                                              RF+LQDLLRASAEVLGSGS GSSYKA LL+GP +VVKR++ MSNVG+ EF+E+M  LG LSHPNLLPLVAFYY KEEKLLI DF +N SLASHLH     NQP L+WPTRLRII+GVA+GL +LYK FP+L LPHGHLKSSNVLLD+ F PLLADY LVP++NKEHA  FM AYKSPE +Q+D R T+KTDVW LGILILE+LTGKFPANYL+QGKGGNADLA+WVNSVVREEWTGEVFD  MK  KN+E EMLKLLKIGMCCCEWNV+RRW L  A+ KI+ LKE ++DED SSYAS+GE YSS+ MTD++F+FSV G
Sbjct:   10 WLILLVHFALTCFVVASGDSEEEAKTLLKFKESLSNDIALSNWNESINLCTGNVSNWKGLMCSNGAVFGLQLEGMGLRGMINMEALAKLPSLRTVSFMNNAFDGPMPQVKELGGALRGLFLSGNKFSGDIPDDAFTGMNALRRVYLENNEFTGKIPKSLAELPRLAAGWLHGNQFEGEIPDFVSKELRTVNLSNNRLRGPIPDSLQNMSLSSFSGNDGLCGKPLDPCKSKKKDIAKIAIIIAAAVVAALATIIIASFILRGRRTQKKQLEQSSAKPYKELANYKQNKEYQLPGHQETYKKSESVKLDFVRNERERFDLQDLLRASAEVLGSGSFGSSYKAKLLTGPTMVVKRFRHMSNVGRDEFHEYMIRLGRLSHPNLLPLVAFYYKKEEKLLITDFVKNDSLASHLHGKQNPNQPGLNWPTRLRIIRGVARGLAYLYKEFPSLTLPHGHLKSSNVLLDQNFEPLLADYALVPVINKEHAQQFMAAYKSPEFTQHD-RTTKKTDVWSLGILILEILTGKFPANYLKQGKGGNADLAAWVNSVVREEWTGEVFDKDMKGRKNSEGEMLKLLKIGMCCCEWNVERRWALTVAVEKIEELKERDSDEDYSSYASEGEMYSSRAMTDEDFSFSVNG 641    
BLAST of DCAR_000678 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6I9SZ97 ((probable LRR receptor-like serine/threonine-protein kinase At4g31250 {ECO:0000313|RefSeq:XP_011076339.1}))

HSP 1 Score: 716.072 bits (1847), Expect = 0.000e+0
Identity = 372/620 (60.00%), Postives = 454/620 (73.23%), Query Frame = 0
 
Query:    3 WTIVLHVLLMCVIFGSSDD--SEAEILLDFKKSLSNAGALSNWNEEVS-LCTGDKGNWNGLLCLKGSFFGLRLESMGLSGIIDVESLSKLPYLRTVSFMNNNFNGPFPGNMNKMSSLRALYLSNNNFSGEIPEDAFKGMNLMRRVYLGNNHFMGKIPKSLAGLSKLVDLQLQNNKFVGRIPNLKQKDLIANFTNNKLEGPIPSALSDEPSSSFAGN-NLCGAPMAECPPSKKKSVPKVAIIVAAAVAIALAIIIISSLLLHRQNRSKK------------------------------------RFELQDLLRASAEVLGSGSSGSSYKAILLSGPAVVVKRYKQMSNVGKAEFYEHMRNLGSLSHPNLLPLVAFYYTKEEKLLINDFAENGSLASHLHSNPKRNQPRLDWPTRLRIIKGVAKGLEHLYKAFPNLPLPHGHLKSSNVLLDETFAPLLADYGLVPMMNKEHAHHFMVAYKSPESSQNDHRLTRKTDVWCLGILILELLTGKFPANYLRQGKGGNADLASWVNSVVREEWTGEVFDNAMKRTKNAEAEMLKLLKIGMCCCEWNVDRRWDLNEAIAKIDGLKEGNNDEDQSSYASDGEAYSSKGMTDDEFTFS 582
            W I L +L +C I  SS D  + A+ LL FK+SL+N   L NW E V  LC+ +   WNG LC+  SF+GL+LE MGL G +DV+SLS+LP LR++S MNNNF+GPFP N+NK+  LR L+L+NNNFSGEIP+DAF GM  M +V LG+N FMGKIP SL GL +LVDLQLQ+N+F GRIP+  Q DL  NF+NNKLEG IP+ L D+ +SSF+GN NLCG P+  C   +K S  K+AII+AA V +ALA  I+  +   R+ +  K                                    +FEL++LLRASAEVLGSGS GSSYKA+L +G   VV+R++ MSNVGK EFYEHMR LG L+H NLLPL+AFYY KEEKLLI DF ENGSLAS LH     NQP LDWP RLRIIKGVA+GL +LYK  P L LPHGHLKSSN+L+D T+ PLLADY L P++NK+HA  FMVAYKSPES+QND  +TRKTDVW LGILILELLTG+FPANYL+QG+G +ADLASWVNSVVREEWTGEVFD  +   +N E +ML+LLKIGMCCCEWNV++RW   EA+ KI+ LKE ++D+D SSYAS+G+ YSS+ MTDD+F+FS
Sbjct:    8 WFITLLMLSLCAIPASSQDDTAYAKSLLKFKESLTNVTMLDNWREPVQKLCSWNTPVWNGCLCVNDSFWGLKLEGMGLGGKLDVDSLSELP-LRSLSVMNNNFSGPFPSNINKLGKLRGLFLANNNFSGEIPDDAFSGMRAMTKVVLGDNSFMGKIPMSLLGLPRLVDLQLQDNQFNGRIPDFWQADLKVNFSNNKLEGAIPNTLRDQNASSFSGNLNLCGEPLDPC--KRKNSTKKIAIIIAAVVVLALAAFIVLFVFYRRRQKPLKHEKSVDHLQTEEPNKGTVTYKNSEHGKLYFVRNDTQKFELEELLRASAEVLGSGSFGSSYKAVLFTGQTYVVRRFRNMSNVGKEEFYEHMRRLGRLTHRNLLPLIAFYYRKEEKLLITDFVENGSLASLLHGKRTPNQPLLDWPMRLRIIKGVARGLAYLYKELPMLTLPHGHLKSSNILVDATYEPLLADYALAPVINKDHAKEFMVAYKSPESTQNDM-VTRKTDVWSLGILILELLTGRFPANYLKQGRGPSADLASWVNSVVREEWTGEVFDKDVSLARNGEGQMLRLLKIGMCCCEWNVEKRWGFREAVEKIEELKERDSDDDYSSYASEGDLYSSRAMTDDDFSFS 623    
BLAST of DCAR_000678 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5N6MW01 (Protein kinase domain-containing protein {ECO:0000259|PROSITE:PS50011})

HSP 1 Score: 714.146 bits (1842), Expect = 0.000e+0
Identity = 366/631 (58.00%), Postives = 455/631 (72.11%), Query Frame = 0
 
Query:    6 VLHVLLMC--VIFGSSDDSEAEILLDFKKSLSNAGALSNWNEEVSLCTGDKGNWNGLLCLK-GSFFGLRLESMGLSGIIDVESLSKLPYLRTVSFMNNNFNGPFPGNMNKMSSLRALYLSNNNFSGEIPEDAFKGMNLMRRVYLGNNHFMGKIPKSLAGLSKLVDLQLQNNKFVGRIPNLKQKDLIANFTNNKLEGPIPSALSDEPSSSFAGNNLCGAPMAECPPSKKKSVPKVAIIVAAAVAIALAIIIISSLLLH----RQNRS---------------------------------------------KKRFELQDLLRASAEVLGSGSSGSSYKAILLSGPAVVVKRYKQMSNVGKAEFYEHMRNLGSLSHPNLLPLVAFYYTKEEKLLINDFAENGSLASHLHSNPKRNQPRLDWPTRLRIIKGVAKGLEHLYKAFPNLPLPHGHLKSSNVLLDETFAPLLADYGLVPMMNKEHAHHFMVAYKSPESSQNDHRLTRKTDVWCLGILILELLTGKFPANYLRQGKGGNADLASWVNSVVREEWTGEVFDNAMKRTKNAEAEMLKLLKIGMCCCEWNVDRRWDLNEAIAKIDGLKEGNNDEDQSSYASDGEAYSSKGMTDDEFTFSVT 584
            ++H+LL+   VI+G  D   A  L+ FK SL+N G L+NW+  V  C G+  NW GL+C K GS FGL+L++MGLSG ID+++L+++  +RT+SF+NN+F G  P N+ K+  LR ++LS N FSG I  DAFKGM+ +R+V LGNN+F+GKIP SL+ L  LVDLQLQ+N+F G IP+ +Q DL  NF NNKL+G IP  L ++  SSFAGN+LCG P++ C  +  K +  + IIVAA+V   LAIII++  +L     R+N++                                             ++RFEL+DLLRASA+VLGSGS GSSYKA+L   P VVVKR+K+MSNVGK EFY HMR LGSLSHPNLLPL+AFYY K+EKLL+ DFAENGSLASHLH   + ++P LDW TRL+IIKGVA+GL+HLY   P L LPHGHLKSSNVLLD+ F PLL+DYGLVP++NKEHA H MVAYKSPE +Q+ H  T+KTDVWCLGILILE+LTGKFPANYL QGKGG  DL +WVNSVVREEWTGEVFD  MK TKN E EMLKLLKIGM CCEW++ RR D+ EA+ KI GLKE  +DE+ SSYAS+G+ YSS+ M DD F+FSVT
Sbjct:   16 LIHILLISSPVIYGQQD--PAAQLIKFKSSLNNTGDLTNWDPNVPPCAGESPNWKGLICNKDGSVFGLQLQNMGLSGTIDMDTLAQITSIRTLSFINNSFEGTLP-NLLKIGPLRGIFLSYNKFSGVIDGDAFKGMSSLRKVELGNNNFVGKIPISLSQLPILVDLQLQDNQFEGEIPDFEQNDLKVNFANNKLDGHIPKGLRNQDPSSFAGNDLCGKPLSNCKKTLNKKL--IIIIVAASVLAVLAIIIMTLFILRTRKTRKNKNIKRQLTKPDRKNTYKTNANEIQMQTKLETYKRTDNGGKLHFLRTDRERFELEDLLRASADVLGSGSFGSSYKAMLADRPPVVVKRFKEMSNVGKEEFYAHMRLLGSLSHPNLLPLLAFYYKKDEKLLVTDFAENGSLASHLHVKRRPDEPGLDWATRLKIIKGVAQGLDHLYNELPRLSLPHGHLKSSNVLLDDEFNPLLSDYGLVPVINKEHAQHLMVAYKSPEFTQHKHT-TKKTDVWCLGILILEMLTGKFPANYLEQGKGGKPDLGTWVNSVVREEWTGEVFDKDMKGTKNGEGEMLKLLKIGMRCCEWDIARRCDMREAVEKIQGLKEREDDEEYSSYASEGDGYSSRAMDDDNFSFSVT 640    
BLAST of DCAR_000678 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A834YW47 ((Uncharacterized protein {ECO:0000313|EMBL:KAF8392766.1}))

HSP 1 Score: 708.753 bits (1828), Expect = 0.000e+0
Identity = 359/622 (57.72%), Postives = 454/622 (72.99%), Query Frame = 0
 
Query:   13 CVIFGSSDDSEAEILLDFKKSLSNAGALSNWNEEVSLCTGDKGNWNGLLCLKGSFFGLRLESMGLSGIIDVESLSKLPYLRTVSFMNNNFNGPFPGNMNKMSSLRALYLSNNNFSGEIPEDAFKGMNLMRRVYLGNNHFMGKIPKSLAGLSKLVDLQLQNNKFVGRIPNLKQKDLIA-NFTNNKLEGPIPSALSDEPSSSFAGN-NLCGAPMAECPPSKKKSVPKVAIIVAAAVAIALAIIIISSLLL-HRQNRS------------------------------------------------KKRFELQDLLRASAEVLGSGSSGSSYKAILLSGPAVVVKRYKQMSNVGKAEFYEHMRNLGSLSHPNLLPLVAFYYTKEEKLLINDFAENGSLASHLHSNPKRNQPRLDWPTRLRIIKGVAKGLEHLYKAFPNLPLPHGHLKSSNVLLDETFAPLLADYGLVPMMNKEHAHHFMVAYKSPESSQNDHRLTRKTDVWCLGILILELLTGKFPANYLRQGKGGNADLASWVNSVVREEWTGEVFDNAMKRTKNAEAEMLKLLKIGMCCCEWNVDRRWDLNEAIAKIDGLKEGNNDEDQSSYASDGEAYSSKGMTDDEFTFSV 583
            CV+  S D S++++L  FK+SL+N  AL NWN   S C+G+KGNW G+LC KG+  GL+LE+MGL G+IDV+SL  LP LRTVSFMNN+F GP P ++ K+ +L++L+LSNNNFSGEIP++AF GM  ++++YL NN F GKIP SL  + +L+ L+L+ N+F G+IP+ +QKDL A N +NN+LEG IP+ LS   +SSF+GN +LCG P+  C  SKK SV  +A++V A V +ALA I    +++ HR+ ++                                                ++RF+LQDLLRASAEVLGSGS GSSYKA+LLSGPA+VVKR++QM+NVG+ EF EHMR LG L HPNLLPLVA+YY KEEKLL++DF ENGSLA HLH      QP LDWPTRL+IIKGVAKGL +LY   P L +PHGHLKSSNVLLDE   PLL DY LVP++N+EHA   M+AYKSPE +Q   R T+KTDVW LGILILE+LTGKFPANYL+QGK G+ DLASWVNSVVREEWTGEVFDN M  TKN + EMLKLLKIG+ CCE +V+RRWDL +AI KI+ L+E ++DE+ SSYAS+GE YSS+  T+D+F+FS+
Sbjct:  108 CVV-ASCDASDSDVLFKFKESLANDTALGNWNASTSPCSGNKGNWVGVLCSKGTVLGLQLENMGLMGLIDVDSLMGLPNLRTVSFMNNSFEGPMP-DIKKLGALKSLFLSNNNFSGEIPDEAFAGMGSLKKIYLANNEFTGKIPLSLVAVPRLLQLRLEGNQFQGKIPDFRQKDLRAFNVSNNELEGKIPAGLSKMDTSSFSGNKDLCGKPLDTCKSSKKPSVLMIAMVVIA-VGVALAAIGAFFIIIRHRRRQTSESGKSPSTNKQNKVVSSEGDQMESGSPEFAGTNKKAENGKLSFVRDDRERFDLQDLLRASAEVLGSGSFGSSYKAVLLSGPAMVVKRFRQMNNVGREEFQEHMRRLGRLRHPNLLPLVAYYYRKEEKLLVSDFVENGSLAGHLHGKHTSAQPGLDWPTRLKIIKGVAKGLAYLYNELPTLIVPHGHLKSSNVLLDEFLEPLLTDYALVPVVNQEHAQELMIAYKSPEYAQYG-RTTKKTDVWSLGILILEMLTGKFPANYLKQGKRGDGDLASWVNSVVREEWTGEVFDNEMGGTKNGQGEMLKLLKIGLDCCERDVERRWDLGDAIEKIEELRERDSDEEYSSYASEGEMYSSRAQTEDDFSFSL 725    
BLAST of DCAR_000678 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A061GI23 ((Leucine-rich repeat protein kinase family protein, putative {ECO:0000313|EMBL:EOY29078.1}))

HSP 1 Score: 706.057 bits (1821), Expect = 0.000e+0
Identity = 363/609 (59.61%), Postives = 443/609 (72.74%), Query Frame = 0
 
Query:   21 DSEAEILLDFKKSLSN-AGALSNWNEEV-SLCTGDKGNWNGLLCLKGSFFGLRLESMGLSGIIDVESLSKLPYLRTVSFMNNNFNGPFPGNMNKMSSLRALYLSNNNFSGEIPEDAFKGMNLMRRVYLGNNHFMGKIPKSLAGLSKLVDLQLQNNKFVGRIPNLKQKDLI-ANFTNNKLEGPIPSALSDEPSSSFAGNN-LCGAPMAECPPSKKKSVPKVAIIVAAAVAIALAIIIISSLL---------------------------------------LHRQNRSKKRFELQDLLRASAEVLGSGSSGSSYKAILLSGPAVVVKRYKQMSNVGKAEFYEHMRNLGSLSHPNLLPLVAFYYTKEEKLLINDFAENGSLASHLHSNPKRNQPRLDWPTRLRIIKGVAKGLEHLYKAFPNLPLPHGHLKSSNVLLDETFAPLLADYGLVPMMNKEHAHHFMVAYKSPESSQNDHRLTRKTDVWCLGILILELLTGKFPANYLRQGKGGNADLASWVNSVVREEWTGEVFDNAMKRTKNAEAEMLKLLKIGMCCCEWNVDRRWDLNEAIAKIDGLKEGNND-EDQSSYASDGEAYSSKGMTDDEFTFSVTG 585
            ++EA ILL FK SLSN   ALS+WN+   S CTGD  NW GL C  G+ FGLRLESMGL G+ID+++L++LP LRT+SFMNN+F+G  P ++NK++SLRALYLS N FSGEI E+ F  MN +++VYL  N+F GKIPKSLA L +L +L L+ N+F G+IP+ +QKDLI  N  +N+LEG IP +L+   SS FAGN  LCG P+ +C  SKK+++  + ++  + V++A AI  +S +                                        L+     + RFELQDLLRASAEVLGSGS GSSYKA+LL G A+VVKR++QM+NVGK EF  HM  LG L HPNLL LVAFYY KEEKLL++DF  NGSLA HLH+    +Q  LDWPTRL+IIKGVAKGL +LYK  P+L LPHGHLKSSNVLLD  F PLL DYGL+P++NKEHA  FMVAYKSPE +Q D R T KTDVW LGILILELLTGKFPANYL+QGKGGN DLA+WVNSVVREEWTGEVFD  MK TKN E EMLKLLKIGMCCCEWN +RRW+L +A+ KI+ LKE ++D ED SS  S+G+AYSS+ +T+D F+FSV G
Sbjct:   26 ETEATILLRFKNSLSNHESALSDWNDSAPSPCTGDNSNWTGLRCSNGTIFGLRLESMGLMGVIDIDTLTELPLLRTLSFMNNSFDGQLP-DVNKLTSLRALYLSYNRFSGEIRENGFAAMNSLQKVYLARNNFSGKIPKSLAALPRLSELSLEGNRFEGKIPDFQQKDLIMVNLADNQLEGRIPDSLTKMNSSLFAGNKGLCGKPLPQCKSSKKRNIIIITVVAGSVVSLA-AIAAVSYIRSGPTTTSQVKNFQEKNAGNIVGRKEAQSSNHYRKAENAKLYFIRNERGRFELQDLLRASAEVLGSGSFGSSYKAVLLDGRAMVVKRFRQMNNVGKEEFRAHMGRLGMLFHPNLLSLVAFYYRKEEKLLVSDFVPNGSLAGHLHARRAPDQSGLDWPTRLKIIKGVAKGLAYLYKELPSLTLPHGHLKSSNVLLDHNFEPLLTDYGLMPVINKEHAQQFMVAYKSPEFTQYD-RTTTKTDVWSLGILILELLTGKFPANYLKQGKGGNVDLATWVNSVVREEWTGEVFDKDMKSTKNGEGEMLKLLKIGMCCCEWNTERRWELKDAVEKIEELKERDSDMEDCSSCGSEGDAYSSRAITEDGFSFSVNG 631    
BLAST of DCAR_000678 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2C9UBC3 (Protein kinase domain-containing protein {ECO:0000259|PROSITE:PS50011})

HSP 1 Score: 704.901 bits (1818), Expect = 0.000e+0
Identity = 364/612 (59.48%), Postives = 439/612 (71.73%), Query Frame = 0
 
Query:   18 SSDDSEAEILLDFKKSLSNAGALSNWNEEVSLCTGDKGNWNGLLCLKGSFFGLRLESMGLSGIIDVESLSKLPYLRTVSFMNNNFNGPFPGNMNKMSSLRALYLSNNNFSGEIPEDAFKGMNLMRRVYLGNNHFMGKIPKSLAGLSKLVDLQLQNNKFVGRIPNLKQKDLIANFTNNKLEGPIPSALSDEPSSSFAGNN-LCGAPMAECPPSKKKSVPKVAIIVAAAVAIALAIIIISSLL-------------------------------------------LHRQNRSKKRFELQDLLRASAEVLGSGSSGSSYKAILLSGPAVVVKRYKQMSNVGKAEFYEHMRNLGSLSHPNLLPLVAFYYTKEEKLLINDFAENGSLASHLHSNPKRNQPRLDWPTRLRIIKGVAKGLEHLYKAFPNLPLPHGHLKSSNVLLDETFAPLLADYGLVPMMNKEHAHHFMVAYKSPESSQNDHRLTRKTDVWCLGILILELLTGKFPANYLRQGKGGNADLASWVNSVVREEWTGEVFDNAMKRTKNAEAEMLKLLKIGMCCCEWNVDRRWDLNEAIAKIDGLKEGNNDEDQSSYASDGEAYSSKGMTDDEFTFSVTG 585
            SS DS A IL+ FK  L+N+ AL NWNE V+ C     NW GL C  G+   L LESMGLSG ID++ L +LP LR +S MNN+F GP P  +NK++SLRALYLS+N FSGE+ +DAF GMN + ++YL NN+F G IP SL  LSKLV L L+NN+F G+IP+ +Q   + N +NN L G IP+AL+    +SFAGN+ LCG P++ C  SKKK++  + I+V  A  IALA++I  +                                             LH     ++RF+LQDLLRASAEVLGSG+ GSSYKA+LL GPA+VVKR+++M+NVGK EF EHM  LG LSH NLLPLVAFYY K+EKLLI DF ENGSLASHLH+     QP LDWPTRL+I+KGVA+GL +L+K FP L LPHGHLKSSNVLLD TF PLL DYGLVP++NK HA   MVAYKSPE +++D R TRKTDVW LGILILELLTGKFPANYLRQGKG NADLA+WVNSVVREEWTGEVFD  M+ TKN E EMLKLLKIGMCCCEW V+RRWDL EA+ KI+ LKE +ND+D SS AS+GE  SS+ MT+D+F+FS+ G
Sbjct:   21 SSSDSNAAILITFKNLLTNSEALYNWNETVNPC-----NWVGLHCKDGAIDKLALESMGLSGKIDIDLLVQLPKLRALSLMNNSFEGPLPA-LNKLASLRALYLSSNKFSGELADDAFAGMNSLIQLYLANNNFTGPIPSSLLPLSKLVRLSLENNQFEGQIPDFQQNFSLFNVSNNHLNGEIPAALASINPTSFAGNDGLCGKPLSACKSSKKKTI--IIIVVVTASVIALAVLIAFAYFRGSRKKTTQVKQLQVQGTKAQTKFAVMGQNEFARSPDNDHKGQLHLVRNDRERFDLQDLLRASAEVLGSGNFGSSYKALLLDGPAMVVKRFREMNNVGKQEFQEHMSRLGRLSHRNLLPLVAFYYRKDEKLLIFDFVENGSLASHLHAKRASGQPALDWPTRLKIVKGVARGLAYLHKEFPTLTLPHGHLKSSNVLLDHTFEPLLTDYGLVPVVNKPHAQQVMVAYKSPEFTRSD-RTTRKTDVWSLGILILELLTGKFPANYLRQGKGANADLATWVNSVVREEWTGEVFDMDMRGTKNGEGEMLKLLKIGMCCCEWRVERRWDLREAVDKIEELKERDNDDDLSSNASEGEFCSSRAMTEDDFSFSING 623    
BLAST of DCAR_000678 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2Z7BC14 ((Leucine-rich repeat protein kinase family protein {ECO:0000313|EMBL:KZV29456.1}))

HSP 1 Score: 699.508 bits (1804), Expect = 0.000e+0
Identity = 359/617 (58.18%), Postives = 446/617 (72.29%), Query Frame = 0
 
Query:    6 VLHVLLMCVIFGSSDDSEA-EILLDFKKSLSNAGALSNWNEEVS-LCTGDKGNWNGLLCLKGSFFGLRLESMGLSGIIDVESLSKLPYLRTVSFMNNNFNGPFPGNMNKMSSLRALYLSNNNFSGEIPEDAFKGMNLMRRVYLGNNHFMGKIPKSLAGLSKLVDLQLQNNKFVGRIPNLKQKDLIANFTNNKLEGPIPSALSDEPSSSFAGNNLCGAPMAECPPSKKKSVPKVAIIVAAAVAIALAIIIISSLLLHRQNR--------------------------------------SKKRFELQDLLRASAEVLGSGSSGSSYKAILLSGPAVVVKRYKQMSNVGKAEFYEHMRNLGSLSHPNLLPLVAFYYTKEEKLLINDFAENGSLASHLHSNPKRNQPRLDWPTRLRIIKGVAKGLEHLYKAFPNLPLPHGHLKSSNVLLDETFAPLLADYGLVPMMNKEHAHHFMVAYKSPESSQNDHRLTRKTDVWCLGILILELLTGKFPANYLRQGKGGNADLASWVNSVVREEWTGEVFDNAMKRTKNAEAEMLKLLKIGMCCCEWNVDRRWDLNEAIAKIDGLKEGNNDEDQSSYASDGEAYSSKGMTDDEFTFS 582
            V  VLL+C I  S DD+++   L++F+K L+NA  L++W E V+ LC+     W G +C  G F GL+LE MGL G ID++SLS LP   ++S MNN+F+GPFP ++N +  LR LYL+NN F+G I + AF GM  MRRV LGNN F G IP SL  L  LVDLQLQ+N+F G+IP+  Q DLI NF+ NKLEG IP+ L ++ +S+F GN LCG P+  C P  K    K+ II+A AV + LA++II  L+L R+ +                                      +++RFEL++LLRASAEVLGSGS GSSYKA+L  G   VV+R++QM+NVGK EF EHMR LG LSHPNLLPLVAFY+ KEEKLLI DFAENGSLASHLHS    NQP LDWPTRLRIIKGV++GL +LY+  P L LPHGHLKSSNVLL  TF PLL+DY LVP+++K+HA  FMVAYKSPESSQNDH +TRKTD+W LGILILELLTGKFPANYL+QG+G +ADLA+WVNSVVREEWTGEVFD  M   + AE +ML+LLKIGMCCC+W+V++RWD  EA+ KI  LKE ++D+D SSYAS+ + YSS+ MTDD+F+FS
Sbjct:   19 VFCVLLLCAIPSSGDDTDSSRSLIEFRKFLTNATMLNDWKEPVANLCSPI---WTGCVCTHGVFTGLKLEGMGLGGTIDIQSLSNLPSFYSLSVMNNSFSGPFPSDLNSLRKLRRLYLANNKFNGGIQDKAFSGMTGMRRVVLGNNKFTGNIPLSLLQLPGLVDLQLQSNQFEGKIPDFWQADLIVNFSYNKLEGSIPATLRNQNASAFYGNKLCGKPLDACKP--KILTWKIGIIIAVAVGVGLAVVIILFLILRRRVKPLKYQKSIDKFHKEEQIPSKSGTFKNSSEHGKLQFVRNNRQRFELEELLRASAEVLGSGSFGSSYKAVLFGGQPYVVRRFRQMNNVGKEEFQEHMRKLGRLSHPNLLPLVAFYHRKEEKLLITDFAENGSLASHLHSKRSPNQPGLDWPTRLRIIKGVSRGLAYLYEELPTLTLPHGHLKSSNVLLGSTFEPLLSDYALVPVIDKDHAQKFMVAYKSPESSQNDH-VTRKTDIWSLGILILELLTGKFPANYLKQGRGPSADLATWVNSVVREEWTGEVFDKDMNLARRAEGQMLRLLKIGMCCCDWDVNKRWDWKEAVEKIQELKEKDSDDDFSSYASEVDVYSSRTMTDDDFSFS 629    
BLAST of DCAR_000678 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6S7NPK8 (Protein kinase domain-containing protein {ECO:0000259|PROSITE:PS50011})

HSP 1 Score: 695.656 bits (1794), Expect = 0.000e+0
Identity = 363/636 (57.08%), Postives = 450/636 (70.75%), Query Frame = 0
 
Query:    2 RWTIVLHVLLMCVIFGSSDDSEAEILLDFKKSLSNAGALSNWNEEVSLCTGDKGNWNGLLCLK-GSFFGLRLESMGLSGIIDVESLSKLPYLRTVSFMNNNFNGPFPGNMNKMSSLRALYLSNNNFSGEIPEDAFKGMNLMRRVYLGNNHFMGKIPKSLAGLSKLVDLQLQNNKFVGRIPNLKQKDLIANFTNNKLEGPIPSALSDEPSSSFAGNNLCGAPMAE-CPPSKKKSVPKVAIIVAAAVAIALAIIIISSLLLHRQNRSK----------------------------------------------------KRFELQDLLRASAEVLGSGSSGSSYKAILLSGPAVVVKRYKQMSNVGKAEFYEHMRNLGSLSHPNLLPLVAFYYTKEEKLLINDFAENGSLASHLHSNPKRNQPRLDWPTRLRIIKGVAKGLEHLYKAFPNLPLPHGHLKSSNVLLDETFAPLLADYGLVPMMNKEHAHHFMVAYKSPESSQNDHRLTRKTDVWCLGILILELLTGKFPANYLRQGKGGNADLASWVNSVVREEWTGEVFDNAMKRTKNAEAEMLKLLKIGMCCCEWNVDRRWDLNEAIAKIDGLKEGNNDEDQSSYASDGEAYSSKGMTDDEFTFSV 583
            +W ++   L   V+   SD ++   L+ FK SL N   LS+WN  V  C  DK NW G++C K GS  GL+LE+MGL+G ID++ LS++P +RT+SF NN F G  P ++ K+  LR++YLSNNNFSG I  D F GM+ MR++ + +N F G+IP+SL G+S LVDLQ+Q+N+F G IPN +QK L  NF NN+L GPIP  L ++ ++SFAGNNLCG P+   C  SK K   K  II   A+ I LAII++S L++  + + K                                                    +RF+LQDLLRASAEVLG GS GSSYKA L+ GPAVVVKR+ +M+NV K  FY+HMR LG+LSHPNLLPLVAFYY K+EKLLI DFAENGSLASHLH   K N+P LDWPTRL+I+KGVA+GL++LY+  PNL LPHGHLKSSNVLLD+TF PLLADYGL P++NK H+  FMVAYKSPE +++D R T KTDVWCLGILILE+LTGKFPANYL+QGKGG++DL +WVNSVVREEWTGEVFD  MK TKN E EMLKLLKIGMCCCEW++++RWDL  AI KI  LKE  +DE+ SSYASDG+AYSS+ MTDD+F+FS 
Sbjct:    5 KWLLLAFFLFTTVL---SDTTDITNLIAFKNSLGNPKPLSDWNPNVEPCNLDKENWTGIICGKNGSVLGLQLENMGLTGTIDMDILSEIPSIRTLSFANNGFGGSMP-DVRKIGLLRSIYLSNNNFSGVIGNDLFAGMSSMRKIEVQSNKFSGRIPESLTGMSILVDLQMQDNEFEGEIPNFEQKSLKVNFANNRLNGPIPRGLMNQNATSFAGNNLCGEPLTNPCKISKNKHTLKTFIIAIVAIIIVLAIIVLSLLIIRSKTKPKNNYKYQQTTKLNNNPYKFNTNEIQMHHHEEDEEKNPKRSENGGKLQFVRGDRERFDLQDLLRASAEVLGGGSFGSSYKASLMGGPAVVVKRFTEMNNVKKEGFYDHMRRLGNLSHPNLLPLVAFYYKKDEKLLITDFAENGSLASHLHGKRKPNEPGLDWPTRLKILKGVAQGLDYLYEELPNLSLPHGHLKSSNVLLDKTFNPLLADYGLTPVVNKHHSQEFMVAYKSPEFTRHD-RTTTKTDVWCLGILILEMLTGKFPANYLKQGKGGSSDLETWVNSVVREEWTGEVFDKEMKGTKNCEGEMLKLLKIGMCCCEWSIEKRWDLKMAIEKISELKERGSDEEYSSYASDGDAYSSRAMTDDDFSFSA 635    
Match NameStatsDescription
A0A5J5ADI5E-Value: 0.000e+0, PID: 60.00Protein kinase domain-containing protein {ECO:0000... [more]
A0A7J0GYC0E-Value: 0.000e+0, PID: 61.36(Leucine-rich repeat protein kinase family protein... [more]
A0A2R6PNE8E-Value: 0.000e+0, PID: 59.87(Pollen receptor-like kinase {ECO:0000313|EMBL:PSR... [more]
A0A6I9SZ97E-Value: 0.000e+0, PID: 60.00(probable LRR receptor-like serine/threonine-prote... [more]
A0A5N6MW01E-Value: 0.000e+0, PID: 58.00Protein kinase domain-containing protein {ECO:0000... [more]
A0A834YW47E-Value: 0.000e+0, PID: 57.72(Uncharacterized protein {ECO:0000313|EMBL:KAF8392... [more]
A0A061GI23E-Value: 0.000e+0, PID: 59.61(Leucine-rich repeat protein kinase family protein... [more]
A0A2C9UBC3E-Value: 0.000e+0, PID: 59.48Protein kinase domain-containing protein {ECO:0000... [more]
A0A2Z7BC14E-Value: 0.000e+0, PID: 58.18(Leucine-rich repeat protein kinase family protein... [more]
A0A6S7NPK8E-Value: 0.000e+0, PID: 57.08Protein kinase domain-containing protein {ECO:0000... [more]

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Analysis: 
NameDescription

An orange, doubled-haploid, Nantes-type carrot (DH1) was used for genome sequencing. We used BAC end sequences and a newly developed linkage map with 2,075 markers to correct 135 scaffolds with one or more chimeric regions. The resulting v2.0 assembly spans 421.5 Mb and contains 4,907 scaffolds (N50 of 12.7 Mb), accounting for ∼90% of the estimated genome size of 473 Mb. The scaftig N50 of 31.2 kb is similar to those of other high-quality genome assemblies such as potato and pepper. About 86% (362 Mb) of the assembled genome is included in only 60 superscaffolds anchored to the nine pseudomolecules. The longest superscaffold spans 30.2 Mb, 85% of chromosome 4.

There are a few different naming schemes for this assembly. First there is the
Authors' original naming scheme: Sequences with DCARv2 prefix are the original assembly as submitted to NCBI. These are labelled DCARv2_Chr1 through DCARv2_Chr9 for the chromosome pseudomolecules, DCARv2_MT and DCARv2_PT for the organellar assemblies, DCARv2_B1 and up for unincorporated superscaffolds, DCARv2_S26.1 and up for unincorporated scaffolds, and DCARv2_C10542132 and up for unincorporated contigs. A file with sequences using this naming scheme can be downloaded from the File: link below.
These sequences can be viewed in JBrowse here.

Phytozome genome ID 388: The authors' sequences and gene predictions were also submitted to Phytozome, and can be accessed at this address: https://phytozome-next.jgi.doe.gov/info/Dcarota_v2_0

LNRQ01: These sequences were then assigned GenBank accession numbers starting at LNRQ01000001.1 which corresponds to DCARv2_Chr1, up to LNRQ01004826.1 which corresponds to an unincorporated contig, DCARv2_C10750146. These reside in bioproject PRJNA268187, which is a subproject of umbrella project PRJNA285926.

Assembly GCA_001625215.1: The genome assembly was later defined an accession number GCA_001625215.1 for assembly ASM162521v1 which consists of only the 9 chromosome sequences and the plastid assembly, which have accession numbers from CM004278.1 to CM004286.1 for the chromosomes and CM004358.1 for the plastid. The mitochondrial genome was not included because it is classified as an incomplete sequence.

RefSeq: The assembly was then later added to RefSeq, and there another new set of identifiers was defined from NC_030381.1 to NC_030389.1 for the chromosomes, and from NW_016089425.1 to NW_016094239.1 for unincorporated scaffolds and contigs. These reside in bioproject PRJNA326436. Note that NCBI substituted different assembled organellar genomes from different genotypes for the RefSeq records.

The NCBI Sequence report lists the correspondences between the various naming methods

Link to the LNRQ01000000.1 master record at NCBI

Raw Reads: Link to SRA accessions used for the genome assembly

This genome is available in the CarrotOmics Blast Search

This analysis is a blastp search of all of the DCAR V1.0 Gene Prediction polypeptide sequences against combined ExPASy SwissProt and TrEMBL databases from Nov. 17, 2021. Prior to performing the blast search, the database was filtered to remove organisms not in the Viridiplantae, and also filtered to remove these same DCAR gene predictions.

For gene model prediction, mobile element–related repeats were masked using RepeatMasker. De novo prediction using AUGUSTUS v2.5.5, GENSCAN v.1.1.0, and GlimmerHMM-3.0.1 was trained using model species A. thaliana and S. lycoperisum training sets. The protein sequences of S. lycoperisum, Solanum tuberosum, A. thaliana, Brassica rapa, and Oryza sativa were mapped to the carrot genome using TBLASTN (BLAST All 2.2.23) and analyzed with GeneWise version 2.2.0. Carrot ESTs were aligned to the genome using BLAT and analyzed with PASA to detect spliced gene models. RNA-seq reads from 20 DH1 libraries were aligned with TopHat 2.0.9. Transcripts were predicted by Cufflinks. All gene models produced by de novo prediction, protein homology searches, and prediction and transcript-based evidence were integrated using GLEAN v1.1. Putative gene functions were assigned using the best BLASTP match to SwissProt and TrEMBL databases. Gene motifs and domains were determined with InterProScan version 4.7 against the ProDom, PRINTS, Pfam, SMART, PANTHER, and PROSITE protein databases. GO IDs for each gene were obtained from the corresponding InterPro entries. All genes were aligned against KEGG (release 58) proteins.

Data from this analysis can be viewed in JBrowse here.

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