XM_017367716.1

Resource Type: 
Polypeptide
Name: 
XM_017367716.1
Identifier: 
XM_017367716.1-protein
Sequence: 
MEMEIDNPEEIKADEVFKAAESGDSSVFDSLSPQNLLKILSFRNEDQRSL
LHVAASSGRTQVVKILSAFDPLVSGINSADEEGWVPLHSAASSGNVEIVE
LLLTRGADVNLKNNGGRTALHYASSKGWLKIAQLLIAHNAKLNVKDKVGC
TPLHRAASTGNGELCEFLIEEGAEVDAVDRAGQTALMTAVICDNREVSLL
LIRHGADVDVEDKEGYTVLGRASNDLRPLLIDAAKAMLEG
Sequence Length: 
240
Sequence Checksum: 
652d59be2a6131ce50b4c5eb969250bb
View location in JBrowse: 
Relationship: 
There is 1 relationship.
Relationships
The polypeptide, XM_017367716.1, derives from mRNA, XM_017367716.1.
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Blast Results: 
The following BLAST results are available for this feature:
BLAST of XM_017367716.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Analysis Date: 2022-01-09
Analysis Name: NCBI peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 10
BLAST of XM_017367716.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: F6HF69 (Ankyrin_rpt-contain_dom domain-containing protein {ECO:0000259|Pfam:PF12796})

HSP 1 Score: 380.563 bits (976), Expect = 8.254e-133
Identity = 183/243 (75.31%), Postives = 211/243 (86.83%), Query Frame = 0
 
Query:    1 MEMEIDNPE---EIKADEVFKAAESGDSSVFDSLSPQNLLKILSFRNEDQRSLLHVAASSGRTQVVKILSAFDPLVSGINSADEEGWVPLHSAASSGNVEIVELLLTRGADVNLKNNGGRTALHYASSKGWLKIAQLLIAHNAKLNVKDKVGCTPLHRAASTGNGELCEFLIEEGAEVDAVDRAGQTALMTAVICDNREVSLLLIRHGADVDVEDKEGYTVLGRASNDLRPLLIDAAKAMLEG 240
            M+MEID  E   +IK +++F+AA+SGDSSVF +LSPQ LL+ LS RNED RSLLHVA S G  +VVK+LS  DP VSGINS DEEGW PLHSAASSG+ EIVE+L++RGADVNLKN+GGRTALHYA+SKGWLKIA+ LI HNAK+N KDK+GCTPLHRAASTGN  +CE LIEEGAEVDA+D+AGQT LM AVIC N+EV+LLLIRHGADVDVEDKEGYTVLGR S+D RP+L+DAAKAMLEG
Sbjct:    1 MDMEIDPTEPEAQIKDEDLFRAADSGDSSVFRALSPQQLLRALSLRNEDDRSLLHVATSLGHLEVVKMLSEADPSVSGINSVDEEGWAPLHSAASSGHTEIVEILISRGADVNLKNDGGRTALHYAASKGWLKIAEFLILHNAKINAKDKIGCTPLHRAASTGNSAMCELLIEEGAEVDAIDKAGQTPLMNAVICQNKEVALLLIRHGADVDVEDKEGYTVLGRTSDDFRPILVDAAKAMLEG 243    
BLAST of XM_017367716.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: M1CQZ3 ((Ankyrin repeat family protein {ECO:0000313|EnsemblPlants:PGSC0003DMT400072805}))

HSP 1 Score: 379.793 bits (974), Expect = 1.492e-132
Identity = 185/231 (80.09%), Postives = 207/231 (89.61%), Query Frame = 0
 
Query:   10 EIKADEVFKAAESGDSSVFDSLSPQNLLKILSFRNEDQRSLLHVAASSGRTQVVKILSAFDPLVSGINSADEEGWVPLHSAASSGNVEIVELLLTRGADVNLKNNGGRTALHYASSKGWLKIAQLLIAHNAKLNVKDKVGCTPLHRAASTGNGELCEFLIEEGAEVDAVDRAGQTALMTAVICDNREVSLLLIRHGADVDVEDKEGYTVLGRASNDLRPLLIDAAKAMLEG 240
            +IK  ++FKAAESGDSS+F SL  + LLK LS RNED RSLLHVA SSG T+VVKIL+A DP VSGINS DEEGWVPLHSAASSGNVEIVE+LL+RGADVNLKN+GGRTALHYA+SKG  KIA+LLI+H AK+N KDKVGCTPLHRAASTGN +LCE LIEEGAEVD VD+AG+T LMTAV+C N+EV+LLLIRHGADVDVEDKEGYTVLGRASNDLRP+L+DAAK MLEG
Sbjct:    9 QIKDKDLFKAAESGDSSLFKSLPEEQLLKSLSLRNEDARSLLHVAVSSGHTEVVKILAAADPSVSGINSGDEEGWVPLHSAASSGNVEIVEILLSRGADVNLKNDGGRTALHYAASKGRAKIAELLISHGAKINAKDKVGCTPLHRAASTGNSQLCELLIEEGAEVDEVDKAGETPLMTAVVCGNKEVALLLIRHGADVDVEDKEGYTVLGRASNDLRPVLVDAAKMMLEG 239    
BLAST of XM_017367716.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A0V0HNN8 ((Putative 26S proteasome non-ATPase regulatory subunit 10-like {ECO:0000313|EMBL:JAP21967.1}))

HSP 1 Score: 379.793 bits (974), Expect = 1.492e-132
Identity = 185/231 (80.09%), Postives = 207/231 (89.61%), Query Frame = 0
 
Query:   10 EIKADEVFKAAESGDSSVFDSLSPQNLLKILSFRNEDQRSLLHVAASSGRTQVVKILSAFDPLVSGINSADEEGWVPLHSAASSGNVEIVELLLTRGADVNLKNNGGRTALHYASSKGWLKIAQLLIAHNAKLNVKDKVGCTPLHRAASTGNGELCEFLIEEGAEVDAVDRAGQTALMTAVICDNREVSLLLIRHGADVDVEDKEGYTVLGRASNDLRPLLIDAAKAMLEG 240
            +IK  ++FKAAESGDSS+F SL  + LLK LS RNED RSLLHVA SSG T+VVKIL+A DP VSGINS DEEGWVPLHSAASSGNVEIVE+LL+RGADVNLKN+GGRTALHYA+SKG  KIA+LLI+H AK+N KDKVGCTPLHRAASTGN +LCE LIEEGAEVD VD+AG+T LMTAV+C N+EV+LLLIRHGADVDVEDKEGYTVLGRASNDLRP+L+DAAK MLEG
Sbjct:    9 QIKDKDLFKAAESGDSSLFKSLPEEQLLKSLSLRNEDARSLLHVAVSSGHTEVVKILAAADPSVSGINSGDEEGWVPLHSAASSGNVEIVEILLSRGADVNLKNDGGRTALHYAASKGRAKIAELLISHGAKINAKDKVGCTPLHRAASTGNSQLCELLIEEGAEVDEVDKAGETPLMTAVVCGNKEVALLLIRHGADVDVEDKEGYTVLGRASNDLRPVLVDAAKMMLEG 239    
BLAST of XM_017367716.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5N6R039 (Ankyrin_rpt-contain_dom domain-containing protein {ECO:0000259|Pfam:PF12796})

HSP 1 Score: 379.407 bits (973), Expect = 2.237e-132
Identity = 186/243 (76.54%), Postives = 213/243 (87.65%), Query Frame = 0
 
Query:    1 MEMEIDNPEE---IKADEVFKAAESGDSSVFDSLSPQNLLKILSFRNEDQRSLLHVAASSGRTQVVKILSAFDPLVSGINSADEEGWVPLHSAASSGNVEIVELLLTRGADVNLKNNGGRTALHYASSKGWLKIAQLLIAHNAKLNVKDKVGCTPLHRAASTGNGELCEFLIEEGAEVDAVDRAGQTALMTAVICDNREVSLLLIRHGADVDVEDKEGYTVLGRASNDLRPLLIDAAKAMLEG 240
            M+MEID   E   IK DE+F+AAESGD+S F SLS + L + LS RNED RSLLHVAASS +++V+K+LSA D   S INSADEEGWVPLHSAAS GN EIVE+LL+RGADVNLKN+GGRTALHYA+SKGWLKIA++LI+  AK+N+KDKVGCTPLHRAASTGN ELCEFLIEEGAEVDAVD+AGQT LM AVIC N+E++LLL+RHGADVDVEDKEGYTVLGRAS+D RPLL+DAAKAMLEG
Sbjct:    1 MDMEIDTRREELQIKDDELFRAAESGDASTFKSLSREQLSRALSLRNEDGRSLLHVAASSSQSEVLKVLSAIDESKSVINSADEEGWVPLHSAASIGNSEIVEILLSRGADVNLKNSGGRTALHYAASKGWLKIAEILISQGAKINLKDKVGCTPLHRAASTGNSELCEFLIEEGAEVDAVDKAGQTCLMNAVICHNKEIALLLVRHGADVDVEDKEGYTVLGRASDDFRPLLVDAAKAMLEG 243    
BLAST of XM_017367716.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2G2YDC8 ((Uncharacterized protein {ECO:0000313|EMBL:PHT67709.1}))

HSP 1 Score: 377.481 bits (968), Expect = 9.305e-132
Identity = 185/239 (77.41%), Postives = 207/239 (86.61%), Query Frame = 0
 
Query:    3 MEIDNPE-EIKADEVFKAAESGDSSVFDSLSPQNLLKILSFRNEDQRSLLHVAASSGRTQVVKILSAFDPLVSGINSADEEGWVPLHSAASSGNVEIVELLLTRGADVNLKNNGGRTALHYASSKGWLKIAQLLIAHNAKLNVKDKVGCTPLHRAASTGNGELCEFLIEEGAEVDAVDRAGQTALMTAVICDNREVSLLLIRHGADVDVEDKEGYTVLGRASNDLRPLLIDAAKAMLEG 240
            ME + P  E+K  E+FKAAE GDSS+F SL+   L+K LS RNED RSLLHVA SSG TQVVKIL+A DP  SGINS DEEGWVPLHSAASSGNVEIVE+LL RGADVN KN+GGRTALHYA+SKG  KIA+LLI+H AK+N KDKVGCTPLHRAASTGN ELCE LIEEGAEVD VD+AG+T LMTAV+C N+EV+LLLIRHGA+VD+EDKEGYTVLGRASNDLRP+L+DAAK MLEG
Sbjct:    1 MESEKPSVEMKEKELFKAAECGDSSLFKSLTEHQLIKALSLRNEDARSLLHVAVSSGHTQVVKILAAADPSASGINSGDEEGWVPLHSAASSGNVEIVEILLNRGADVNQKNDGGRTALHYAASKGRAKIAELLISHGAKINAKDKVGCTPLHRAASTGNSELCELLIEEGAEVDEVDKAGETPLMTAVVCGNKEVALLLIRHGANVDIEDKEGYTVLGRASNDLRPILVDAAKVMLEG 239    
BLAST of XM_017367716.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A200PR78 ((Ankyrin repeat {ECO:0000313|EMBL:OVA00731.1}))

HSP 1 Score: 377.481 bits (968), Expect = 1.429e-131
Identity = 181/242 (74.79%), Postives = 211/242 (87.19%), Query Frame = 0
 
Query:    1 MEMEIDNPE---EIKADEVFKAAESGDSSVFDSLSPQNLLKILSFRNEDQRSLLHVAASSGRTQVVKILSAFDPLVSGINSADEEGWVPLHSAASSGNVEIVELLLTRGADVNLKNNGGRTALHYASSKGWLKIAQLLIAHNAKLNVKDKVGCTPLHRAASTGNGELCEFLIEEGAEVDAVDRAGQTALMTAVICDNREVSLLLIRHGADVDVEDKEGYTVLGRASNDLRPLLIDAAKAMLE 239
            MEMEID+P+   + K D++FK+AE GDSS+F SLS + L K+LS RNED RSLLHVAASS   +VV++LSA DP +SG+NS DEEGW PLHSA+S GN EIV +LL+RGADVNLKNNGGRTALHYA+SKGWLK+A++LI+H AKLN KDKVGCTPLHRAASTGN  +CE LIEEGAE+DAVD+AGQT LM AVIC N+EV+ LLIRHGAD+DVEDKEGYTVLGRAS++LRPLLIDAAKAMLE
Sbjct:    1 MEMEIDSPKPESQTKDDDLFKSAEKGDSSIFKSLSEEELQKVLSLRNEDGRSLLHVAASSSHAEVVRVLSAADPSISGVNSTDEEGWAPLHSASSIGNAEIVNILLSRGADVNLKNNGGRTALHYAASKGWLKVAEVLISHGAKLNQKDKVGCTPLHRAASTGNSNVCELLIEEGAEIDAVDKAGQTPLMNAVICYNKEVAFLLIRHGADLDVEDKEGYTVLGRASDELRPLLIDAAKAMLE 242    
BLAST of XM_017367716.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A314KQE7 ((Protein s-acyltransferase 24 {ECO:0000313|EMBL:OIT31651.1}))

HSP 1 Score: 376.711 bits (966), Expect = 1.918e-131
Identity = 183/239 (76.57%), Postives = 208/239 (87.03%), Query Frame = 0
 
Query:    3 MEIDNPE-EIKADEVFKAAESGDSSVFDSLSPQNLLKILSFRNEDQRSLLHVAASSGRTQVVKILSAFDPLVSGINSADEEGWVPLHSAASSGNVEIVELLLTRGADVNLKNNGGRTALHYASSKGWLKIAQLLIAHNAKLNVKDKVGCTPLHRAASTGNGELCEFLIEEGAEVDAVDRAGQTALMTAVICDNREVSLLLIRHGADVDVEDKEGYTVLGRASNDLRPLLIDAAKAMLEG 240
            M+ D P  +IK  ++FKAAESGDSS+F+SL+ + LLK LS RNED RSLLHVA SS   QVVKIL A DP  SGINS DEEGWVPLHSAASSGNVEIVE+LL+RGADVNLKN+GGRTALHYA+SKG +KIA+LLI+H AK+N KDKVGCTPLHRAASTGN ELCE LIEEGAE+D VD+AG+T LMTAV+C N+EV++LLIRHGA+VD EDKEGYTVLGRASNDLRP L+DAAK MLEG
Sbjct:    1 MDFDKPSAQIKEKDLFKAAESGDSSLFESLTEEQLLKALSLRNEDARSLLHVAVSSAHAQVVKILGAADPSASGINSGDEEGWVPLHSAASSGNVEIVEILLSRGADVNLKNDGGRTALHYAASKGRVKIAELLISHGAKINAKDKVGCTPLHRAASTGNSELCELLIEEGAEIDEVDKAGETPLMTAVVCGNKEVAMLLIRHGANVDAEDKEGYTVLGRASNDLRPALVDAAKTMLEG 239    
BLAST of XM_017367716.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2G3B7H5 ((Uncharacterized protein {ECO:0000313|EMBL:PHU02433.1}))

HSP 1 Score: 376.711 bits (966), Expect = 2.388e-131
Identity = 184/239 (76.99%), Postives = 207/239 (86.61%), Query Frame = 0
 
Query:    3 MEIDNPE-EIKADEVFKAAESGDSSVFDSLSPQNLLKILSFRNEDQRSLLHVAASSGRTQVVKILSAFDPLVSGINSADEEGWVPLHSAASSGNVEIVELLLTRGADVNLKNNGGRTALHYASSKGWLKIAQLLIAHNAKLNVKDKVGCTPLHRAASTGNGELCEFLIEEGAEVDAVDRAGQTALMTAVICDNREVSLLLIRHGADVDVEDKEGYTVLGRASNDLRPLLIDAAKAMLEG 240
            ME + P  E+K  E+FKAAE GDSS+F SL+   L+K LS RNED RSLLHVA SSG TQV+KIL+A DP  SGINS DEEGWVPLHSAASSGNVEIVE+LL RGADVN KN+GGRTALHYA+SKG  KIA+LLI+H AK+N KDKVGCTPLHRAASTGN ELCE LIEEGAEVD VD+AG+T LMTAV+C N+EV+LLLIRHGA+VD+EDKEGYTVLGRASNDLRP+L+DAAK MLEG
Sbjct:    1 MESEKPSVEMKEKELFKAAECGDSSLFKSLTEHQLIKALSLRNEDARSLLHVAVSSGHTQVIKILAAADPSASGINSGDEEGWVPLHSAASSGNVEIVEILLNRGADVNQKNDGGRTALHYAASKGRAKIAELLISHGAKINAKDKVGCTPLHRAASTGNSELCELLIEEGAEVDEVDKAGETPLMTAVVCGNKEVALLLIRHGANVDIEDKEGYTVLGRASNDLRPILVDAAKMMLEG 239    
BLAST of XM_017367716.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2G2VL48 (Ankyrin_rpt-contain_dom domain-containing protein {ECO:0000259|Pfam:PF12796})

HSP 1 Score: 376.326 bits (965), Expect = 2.754e-131
Identity = 184/239 (76.99%), Postives = 207/239 (86.61%), Query Frame = 0
 
Query:    3 MEIDNPE-EIKADEVFKAAESGDSSVFDSLSPQNLLKILSFRNEDQRSLLHVAASSGRTQVVKILSAFDPLVSGINSADEEGWVPLHSAASSGNVEIVELLLTRGADVNLKNNGGRTALHYASSKGWLKIAQLLIAHNAKLNVKDKVGCTPLHRAASTGNGELCEFLIEEGAEVDAVDRAGQTALMTAVICDNREVSLLLIRHGADVDVEDKEGYTVLGRASNDLRPLLIDAAKAMLEG 240
            ME + P  E+K  E+FKAAE GDSS+F SL+   L+K LS RNED RSLLHVA SSG TQVVKIL+A DP  SGINS DEEGWVPLHSAASSGNVE+VE+LL RGADVN KN+GGRTALHYA+SKG  KIA+LLI+H AK+N KDKVGCTPLHRAASTGN ELCE LIEEGAEVD VD+AG+T LMTAV+C N+EV+LLLIRHGA+VD+EDKEGYTVLGRASNDLRP+L+DAAK MLEG
Sbjct:    1 MESEKPSVEMKEKELFKAAECGDSSLFKSLTEHQLIKALSLRNEDARSLLHVAVSSGHTQVVKILAASDPSASGINSGDEEGWVPLHSAASSGNVELVEILLNRGADVNQKNDGGRTALHYAASKGRAKIAELLISHGAKINAKDKVGCTPLHRAASTGNSELCELLIEEGAEVDEVDKAGETPLMTAVVCGNKEVALLLIRHGANVDIEDKEGYTVLGRASNDLRPILVDAAKMMLEG 239    
BLAST of XM_017367716.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J7GIE0 ((Uncharacterized protein {ECO:0000313|EMBL:KAF5939146.1}))

HSP 1 Score: 375.941 bits (964), Expect = 1.223e-130
Identity = 188/252 (74.60%), Postives = 213/252 (84.52%), Query Frame = 0
 
Query:    1 MEMEIDNP-------EEIKADEVFKAAESGDSSVFDSLSPQNLLKILSFRNEDQRSLLHVAASSGRTQVVKILSAFDPLVSGINSADEEGWVPLHSAASSGNVEIVELLLTRGADVNLKNNGGRTALHYASSKGWLKIAQLLIAHNAKLNVKDK------VGCTPLHRAASTGNGELCEFLIEEGAEVDAVDRAGQTALMTAVICDNREVSLLLIRHGADVDVEDKEGYTVLGRASNDLRPLLIDAAKAMLE 239
            MEMEID P       E IK D+ F AAE+GDSS F++LS   LLK LS RNED RSLLHVAASS   +VVKILSA DP V+GINSADEEGW PLHSA+SSGNVEIVE++L+ GADVNLKNNGGRTALHYA+SKGWLKIA++L++H A +N+KDK      VGCTPLHRAASTGN E CE LIEEGAEVDA+D+AGQT LM+AVIC+N+EV+LLLIRHGA+VDVEDKEGYTVLGRAS DLRP+LIDAAKAMLE
Sbjct:   19 MEMEIDPPKKPEVGAEAIKNDDFFNAAENGDSSFFEALSHDQLLKALSLRNEDCRSLLHVAASSAHPKVVKILSAADPSVTGINSADEEGWAPLHSASSSGNVEIVEIMLSSGADVNLKNNGGRTALHYAASKGWLKIAEILLSHGANINLKDKACNFTLVGCTPLHRAASTGNSEFCELLIEEGAEVDAIDKAGQTPLMSAVICENKEVALLLIRHGANVDVEDKEGYTVLGRASVDLRPILIDAAKAMLE 270    
Match NameStatsDescription
F6HF69E-Value: 8.254e-133, PID: 75.31Ankyrin_rpt-contain_dom domain-containing protein ... [more]
M1CQZ3E-Value: 1.492e-132, PID: 80.09(Ankyrin repeat family protein {ECO:0000313|Ensemb... [more]
A0A0V0HNN8E-Value: 1.492e-132, PID: 80.09(Putative 26S proteasome non-ATPase regulatory sub... [more]
A0A5N6R039E-Value: 2.237e-132, PID: 76.54Ankyrin_rpt-contain_dom domain-containing protein ... [more]
A0A2G2YDC8E-Value: 9.305e-132, PID: 77.41(Uncharacterized protein {ECO:0000313|EMBL:PHT6770... [more]
A0A200PR78E-Value: 1.429e-131, PID: 74.79(Ankyrin repeat {ECO:0000313|EMBL:OVA00731.1})[more]
A0A314KQE7E-Value: 1.918e-131, PID: 76.57(Protein s-acyltransferase 24 {ECO:0000313|EMBL:OI... [more]
A0A2G3B7H5E-Value: 2.388e-131, PID: 76.99(Uncharacterized protein {ECO:0000313|EMBL:PHU0243... [more]
A0A2G2VL48E-Value: 2.754e-131, PID: 76.99Ankyrin_rpt-contain_dom domain-containing protein ... [more]
A0A7J7GIE0E-Value: 1.223e-130, PID: 74.60(Uncharacterized protein {ECO:0000313|EMBL:KAF5939... [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

The RefSeq genome records for Daucus carota subsp. sativus were annotated by the NCBI Eukaryotic Genome Annotation Pipeline, an automated pipeline that annotates genes, transcripts and proteins on draft and finished genome assemblies. This report presents statistics on the annotation products, the input data used in the pipeline and intermediate alignment results.

View the full report at https://www.ncbi.nlm.nih.gov/genome/annotation_euk/Daucus_carota_subsp._sativus/100/

Data from this analysis can be viewed in JBrowse here.

This analysis is a blastp search of all of the NCBI Daucus carota subsp. sativus Annotation Release 100 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 DCAR gene predictions from DCAR V1.0 Gene Prediction.
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