DCAR_001437 | CarrotOmics

Resource Type:

mRNA

Name:

DCAR_001437

Identifier:

DCAR_001437.mRNA

Organism:

Daucus carota subspecies sativus

Analysis:


Name	Description
Carrot Genome Assembly DCARv2	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
Carrot Genome Assembly V.2 RNAseq population 70796 dOr vs. pOr	This analysis was part of the carrot genome assembly publication In population 97837, root tissue was collected from plants with yellow (yyY₂Y₂) and white (YYY₂Y₂) genotypes, with two biological replications per genotype, at 80 days after planting (DAP). In population 70796, root tissue was collected from plants with dark orange (yyy₂y₂) and pale orange (YYy₂y₂) genotypes, with three biological replications per genotype, at 100 DAP. Total RNA was extracted from whole root tissue using the TRIzol® Plus RNA Purification Kit (Life Technologies, Carlsbad, CA) in accordance with the manufacturer’s protocol. RNA was treated for DNA contamination with the TurboDNA-free kit (Life Technologies, Carlsbad, CA). RNA quantity and integrity was confirmed with an Experion RNA StdSens Analysis kit (Bio-Rad, Hercules, CA). All samples had RQI values above 8.0. For each biological replicate, a 133 nt insert size paired-end library was prepared at the Biotechnology Center, UW-Madison (WI, USA). Libraries were sequenced on Illumina HiSeq2000 lanes using 2 × 100 nt reads. Reads were filtered using Trimmomatic version 0.32 with adapter trimming and using a sliding window of length ≥50 and quality ≥28, i.e. “ILLUMINACLIP:adapterfna:2:40:15 LEADING:28 TRAILING:28 SLIDINGWINDOW:10:28 MINLEN:50”. Filtered reads were aligned to the Daucus carota v2.0 genome assembly using the program TopHat v2.0.12 (ref. 30). Non-default parameters used were “--mate-inner-dist -67 --mate-std-dev 50 --min-intron-length 20 --max-intron-length 10000 --library-type fr-unstranded --num-threads 14”. The aligned read files were processed by Cufflinks v2.2.1 (ref. 61). Reads were assembled into transcripts with “cufflinks” using the carrot annotation v1.0 gene predictions as the reference gtf guide. Samples were combined with “cuffmerge”, and then differential expression analyzed with “cuffdiff”, using non-default parameters of “--multi-read-correct --min-alignment-count=5”. Using the abundance estimations, this performs tests for differential expression and regulation between the samples. Normalized counts of the mapped RNA sequences were used to calculate the relative abundances of transcripts expressed as Fragments Per Kilobase of exon per Million fragments mapped (FPKM). When testing for differential expression, biological replicates were included as a term in the mixed model analysis to account for experimental error. Testing for differential expression was done at the level of genes, isoforms, and promoters. Some of the data from this analysis were published in Sup. Table 44: Annotation of carrot genes upregulated in both yellow and dark orange (yy) storage roots of plants from mapping populations and in Sup. Table 45: Annotation of carrot genes downregulated in yellow or dark orange (yy) storage roots of plants from mapping populations of the carrot genome assembly publication
Carrot Genome Assembly V.2 RNAseq population 97837 Y vs. W	This analysis was part of the carrot genome assembly publication In population 97837, root tissue was collected from plants with yellow (yyY₂Y₂) and white (YYY₂Y₂) genotypes, with two biological replications per genotype, at 80 days after planting (DAP). In population 70796, root tissue was collected from plants with dark orange (yyy₂y₂) and pale orange (YYy₂y₂) genotypes, with three biological replications per genotype, at 100 DAP. Total RNA was extracted from whole root tissue using the TRIzol® Plus RNA Purification Kit (Life Technologies, Carlsbad, CA) in accordance with the manufacturer’s protocol. RNA was treated for DNA contamination with the TurboDNA-free kit (Life Technologies, Carlsbad, CA). RNA quantity and integrity was confirmed with an Experion RNA StdSens Analysis kit (Bio-Rad, Hercules, CA). All samples had RQI values above 8.0. For each biological replicate, a 133 nt insert size paired-end library was prepared at the Biotechnology Center, UW-Madison (WI, USA). Libraries were sequenced on Illumina HiSeq2000 lanes using 2 × 100 nt reads. Reads were filtered using Trimmomatic version 0.32 with adapter trimming and using a sliding window of length ≥50 and quality ≥28, i.e. “ILLUMINACLIP:adapterfna:2:40:15 LEADING:28 TRAILING:28 SLIDINGWINDOW:10:28 MINLEN:50”. Filtered reads were aligned to the Daucus carota v2.0 genome assembly using the program TopHat v2.0.12 (ref. 30). Non-default parameters used were “--mate-inner-dist -67 --mate-std-dev 50 --min-intron-length 20 --max-intron-length 10000 --library-type fr-unstranded --num-threads 14”. The aligned read files were processed by Cufflinks v2.2.1 (ref. 61). Reads were assembled into transcripts with “cufflinks” using the carrot annotation v1.0 gene predictions as the reference gtf guide. Samples were combined with “cuffmerge”, and then differential expression analyzed with “cuffdiff”, using non-default parameters of “--multi-read-correct --min-alignment-count=5”. Using the abundance estimations, this performs tests for differential expression and regulation between the samples. Normalized counts of the mapped RNA sequences were used to calculate the relative abundances of transcripts expressed as Fragments Per Kilobase of exon per Million fragments mapped (FPKM). When testing for differential expression, biological replicates were included as a term in the mixed model analysis to account for experimental error. Testing for differential expression was done at the level of genes, isoforms, and promoters. Some of the data from this analysis were published in Sup. Table 44: Annotation of carrot genes upregulated in both yellow and dark orange (yy) storage roots of plants from mapping populations and in Sup. Table 45: Annotation of carrot genes downregulated in yellow or dark orange (yy) storage roots of plants from mapping populations of the carrot genome assembly publication
DCAR V1.0 Gene Prediction	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.

Transcript Id:

gnl|USDA|mrna.DCAR_001437

Protein Id:

gnl|USDA|DCAR_001437

Product:

hypothetical protein

Sequence:

ATGGACTCCTACACTCCATTACTGGAGAGAACTCGAGTTCCCCAACCCTC
TATTCAATCCTACGCCGTTATATCCATTTTCGACAAGTTCCGATCCTCTC
CGCCCCACCTGATTGACGCCGGAAGAGAAGCAATCGCTCAATGTCTTCTC
TCCTCTTCCCCCGCCGTCGTCGATCAGTCCGTACGCCAATTGTGTCGTCT
CGTGATCCAGGAGAAATTCAAATTGTCTGATGCTTTGATGGAGCTCCAAT
CAGCCTTAGAAGCCTCCCAATCACGTTTTGTTGATGTGTTTGTCAAGGCT
TTAGGCTTTCTCGTTCGCTTAGGCTTCCGGAATCATCCTCATTCGTTTCG
CTTTTCGTCTTCCAATGCTCATCCTTTTGTCAAGATACTTTGTTGCAGGC
CAGAGGTTCAATCGGAACTTGTCAAACAAGTTGTTTTGTTTATGGTGTCC
AACAAGAGTATTGGAATGCTTAAAGTTTGTGATTTTTTAAGCTCCTTTTT
CAACTTTATGACCATAAGAATGTCCGATTTTAATTCCTGTTGTCGAAGTC
TGGTTTCGTCTGTGGCATCTCTTTGCTGTTCATATCCTCTGGACGCTCTG
CCTGTTATGAAGCTGCTAGTTAAATGTCTCAGATTTTGTCCTAGCAAAAA
TGAAGAAGAAAATGTTTCTTACGTTTTGGAACACATGGTGAATATGTTTA
TTGTGGTTTTGCGGCAGCTGGTTGAGATAGGATTGCTTGTTCATGAGACC
CAGCTACAATGTGTGGAACTTCTCGAAACCATCTTTTCACTGAATATATA
TCTTGACAAGGGTTCCTGTAGGAGTGAAGCTGTGATTGAAATGTCAAGGC
GTCTAGTAACTGTCCAGAACGATCTTAGTTTGAGTTATATACCTGAATTT
TCGTCTGTGGTATTATCATTATTTATTGCTCTTGTTCAGGAAGAGTTTGA
GCACAAACAACTCTCCATACTCCGAATGCTTTTGCTTCTCTTGAAATGGA
AAGGTGAAAAGGGTAATCTTGTTACTGAATGTGTGGTTGAAGAACTTCTT
TTCATATTTCCTCTCATGAACCTCATGTCCTCCCCTTCAATATCTGTTAA
ACAAGCAGCAACAAATTTGCTTTCCATGTTGTATAAGTCCGCAACAAACT
TGTTGGTTACACAAGCCAAAGATCAAGGCATTAGAAGGAAAAAACCACCC
ATTAGCAGACCTGAGCATATCTTTTACAGGCTTCTGCTGCATATATGGTA
TCAGGATCAATTTTTGTCATATGCTTCATCCAACTTAGTTATGACGAATG
GTGAAATTAATATGAAAGGAACATATCAGTTACCAAAGAGATGGACTGAC
ATGATGGCAGAGTATGCACTTGGGGTCATTGAAAAACAGAAGTCTTCCGT
ACCCATCTCCCAGTCTGAGAGCATCTTGCTCAAGGAGATGGCACCATATC
TTAGTGCTATAATGAGTGTTCTTGTCCTGCATCGTGCCATGGGTGCTTCA
GCTGTAGATCTATTGGCTGTTTCTGGCGACATGAACCCTAAACTTGGTGT
ACCACTGCTACTAGTCATCTTATTCTATAATAACATAAACTGTGCTAAAG
ATCGAGACTTCCATCAGATACTGCTAAAGCTTTTGGGGATACTTCCATCG
CTTGCTTCGCATCCTGCAATGGTTCCACTTGTTGTTCAGACTATATTGCC
GATGCTTCAGAATGACACGAAACCTGTGCTGTATGCTACTGCCACACGTG
TACTTTGCAAGACATGGGAGATCAATGATCGTGTATTTGGGAGTTTGCAG
AGCGTATTACTCCCGAATCGATTTATCCAGTATGCATCTCAAAGAGATAT
ATGTATAAGCATGGCAATTTCTATACGAGATGTTTGCAAGAGAGATCCTG
ATAGAGGCGTGGACCTTATTCTCTCTGTATCGGCTTGCATTGAGAGCCGT
GATTCTTCAATTCACACTATTGGCCTTTTAAGTCTTGCCCATCTTTGTGA
AGCTGATGTAATCGATTTCTATACTGCTTGGGGTGTTATAAGAAAGCATT
TGCTCAATTACTTGGAAAATCCTATTATATGTCACGGCGTTTCTCTTCTT
CTACGATGTGGTGCAATGGATGCTGCTGTATTCCCAGAAGCAGCAAATGA
TATATTGCATATATTGTGGGAGATTGGAACCACCCTCCATCCTGCTAGTG
AATTAATGTGGACAAAGGCTCGAGCAGCTGCCTTTGAATCATTGACTTAT
TATGAGGTATTACATGTTCAGAACAGCACTCCAGAATTTAGAGAGAGAAC
CATGGAGTTGCTTACTGCTGAGACCGATACCGAAGTGCTTTGGGCTATGG
AAAAATTTGTCATAAATATTATCAAATTTGAGCACCAGACAAGGCAAAGA
TTAGTGAAGGAGAAACGGGTACCTCGAAATAAAATCGAGAAGTTGGTAAA
TATATCTCCACAGCTAAATTTCAAGCAAGGAGATGATAGAAAAATTAGAG
ATTTACCTGGTGCAGCTCTTTTTTCCCTTACCTTTACTCATGATGTGAAC
AAGCCCGGGGCTGCAAAAGATCTGCATGCTAAATTTAGGACTGCATTATT
GGACATAGCAGCATCACTCCATCTATCAAGAAATATTTCGGTTGCGGTTC
TTTCCTTCCAGTCATGGAAAATTTTCATGCAACGCTGGATAAAGGAGCAG
ATCATGCTAAATGACGTGAAGGGATTATCCACATCATTAAATAATACTAA
TAAACCTGCTAATGATATCTTGAAGAGTATAATACAGATTGCAGAGGAGT
CTATTCCCAGATTGGCTGAAAATATTGCACTAGCTGTTGGTGCATTTTGT
ATGGTTCTTCCTGCATCGGCTCATGCTGTCAAATCTACTGCCTTAAATTT
CCTGCTGAAATGGCTATATCAGTATGAACATGAATATCGCCAGTGGTCTG
CTGCAATATCTATTGGAGCAATCTCAAGTAATTTGCATGCAACTGACTAT
AAACAAAAGTTTCAAAATATCAATGCACTTCTTGAGGTTGCATCAATCTG
CAAAAGCACATTGGTAAAAGGGGCTTGTGGACTTGGATTGGGGTTATCTT
CTCAAGATCTCATTACCAGGGTAAAAGTTGATGATGAATCTGACTCGCAT
AAAGAAACATACATGATGCAGGAAACATATCTGCTTGGACGGATTGTGAG
GGCTTTATGCCAAATGTTAAGCAAAATTACTCGACTATCATCTGATGCAC
TAGAATTACAAAGCATATGTGCATACTTTGGTCAAGCAACAGATGCTGGT
GATTCAGAGAGCTTTCTCATTATCCATGATAACTTGGAGGAAGATGTATG
GGGTATTGCTGGAGTTGTTCTTGGTTTAGGAAATACTGTTGCAGCAGTGT
ATCGGACCGGAAATCATGACGCTGTGTGTAAAATAAATGGCTTGATAAGT
TCATGGATGCGACATGTCAATCCTTTAATTATTAACTCAACTACCAGCGA
GAAAATTGAATTAGCATTGTTAGTAGGATCTTGTCTTGCTCTTCCTAATT
TAGTAGATTTCTTCCAGAGAGTGGATGATCTTGATGATTCTGAACTGGAT
AATCTGATAAGTAGCTTTAAGGATCTTATTTCTGAACTTGTCTCAGTTAA
CAAATCAGGCGTACTTTATCAAAGTTTGTTGTTTGCATCCTGTACTGGAG
TAGGAAACCTTTTGGCATGCATCTTGAATGAAGGGGTGCATTTAGTTCGA
GTTGAATATGTTACTGACTTGCTAATGTTGTTCAAAAAATGCTATACAGC
CTCTTATCCCCCTCTTGTCCATTTGGGTGGGATGCTTGGAATTGTAAACA
TATTAGGTGCTGGTGCTGGTTTTCTGTTCCAACGTGATTGTTCAACCTTT
CTGCACCCTGTTCATGATCTCAAGAATTCTTCTTATATTACGGGGTCTTT
GCTTTCAAGTTCTGCTATGGAGCCAAATCTGGTGTCATTAGTTCAGGACA
TCTTTCTTGTTTCTCAAAATCCTGATGACCAACAACTACAATCATATGCC
GCATGGGCCATTTCTTTTCTTAGACATTATTTGTGGTACAGAAATGTTAG
AAATGAAGATGATAACTCCCAGCGCGATGCAGTTGGTTCAAAATTTGTTT
CTTCAAATCCTCCAGACGACAGTTTAGTCATGAAGCTCTCTTTGTGGTTA
ATGAATCACAGCTTCCCTGGGACAGGTACTGCTCATGTTAACACAGTTTT
GACTGCTTTACGATGTCTTACTAGTGCTCCAAGATTACCACTATTAGATT
GGGGAGCAATCATCAGACGGTGTATGAGACTCAATTCTGTAGATCATGTA
TTATTACCCTCGGATTCAGCTTCTTCAAGGAGAGTATTTGTACGGGAGGA
GTGCCTGTTATTCTCTTTAGCCCATGCAAAGGAATTTGATCCTCTTCTCA
GCTTACTAGATGAGTTGTCTGACTTGCCCAGGTTTAGGATGCTCGAGCTA
AATATGCAGTCTTTTCTGCTCTCTCGTCTTGCAGACATGAGTAAGGTTTT
TTCAGGTTCTAGGATCGAAAAGCTATTTGATGATGTGGCAAACTTTGTAA
AACTGTTAGTTCCTTCACATCAGCTATATAATTCGGAACAGAAAAGTTTA
TTAAGGATTTCTTGCTGGAAGGGTCTTTCTTTATGTTTAATGGGAGCTAC
AGCTGACGGAGAAGATCATGTTTCTTATATGGAAAACTGCTTGAAGGTTC
TGTTTTGTTCAACATCTTCTAGTGCAGTAGTTGGTCAGGATCATTTATCA
GAGGAGTGGTCTGCTGCAATTAAGTGCTTGGCACAGGCTCGGCAGCCTTG
GTTACTTGACTTTTTTAAGCCCAGAGATACTCTGCAGGTCTCAGAGGTGG
ATTTCAGATCTGGAGACATGTACTTTCTTGAAGTAAAGAAAAAAATTCAA
GCAACATGCATGCTAGCGCGGACCGGTTCCATTCCATTGTCTCATATTGG
AAGCCTGAAAGCATACATGCTAAACACCAGATCACAAGATATCTGGGAGG
TGCTAGTAGAAGTTGCAGCCACCCTTCAAAATGCTGATGGAAGCATTAAA
AGACAGTGGGTTCTTGATGCTGCTGAAATTAGCTGTGTAACCAGACATCC
GTTGACGGCGATGCAGTTCCTTGGCCTGCTATGTGGCAGCTTCAGCAAGT
ATATGCCTTTTCTGATTGTTGACCGGATGACTGTGTTATGTGACTTTCCA
GTTGCTCTTGCTTCTCTTCTATCAGAAACTAGCTGGGGCAATGTAGCAGA
ATCTGTAGTTTCACTTCTGTGGTCAACAACAGAACGGTTACATGATTGGG
TTACAAACACGGAAATAGTTCTCAGTGATTCCCCAATTTCCCAGTCTATT
GACCAAAGTGAGGATTCTATGGCTGATTTTCTCTTGAAGTTGCTGCATCA
TACATGCGTTTCTCTGAAAGACTATCTGCCGATGGAGAAGCAGCTTAGTC
TTGCTAACATGGTTATTCCTTAA

Sequence Length:

5523

Sequence Checksum:

66d131dd4914be0dad6026ced4c275fc

View location in JBrowse:

DCARv2_Chr1:15303518..15334994-

Protein Sequence:

MDSYTPLLERTRVPQPSIQSYAVISIFDKFRSSPPHLIDAGREAIAQCLL
SSSPAVVDQSVRQLCRLVIQEKFKLSDALMELQSALEASQSRFVDVFVKA
LGFLVRLGFRNHPHSFRFSSSNAHPFVKILCCRPEVQSELVKQVVLFMVS
NKSIGMLKVCDFLSSFFNFMTIRMSDFNSCCRSLVSSVASLCCSYPLDAL
PVMKLLVKCLRFCPSKNEEENVSYVLEHMVNMFIVVLRQLVEIGLLVHET
QLQCVELLETIFSLNIYLDKGSCRSEAVIEMSRRLVTVQNDLSLSYIPEF
SSVVLSLFIALVQEEFEHKQLSILRMLLLLLKWKGEKGNLVTECVVEELL
FIFPLMNLMSSPSISVKQAATNLLSMLYKSATNLLVTQAKDQGIRRKKPP
ISRPEHIFYRLLLHIWYQDQFLSYASSNLVMTNGEINMKGTYQLPKRWTD
MMAEYALGVIEKQKSSVPISQSESILLKEMAPYLSAIMSVLVLHRAMGAS
AVDLLAVSGDMNPKLGVPLLLVILFYNNINCAKDRDFHQILLKLLGILPS
LASHPAMVPLVVQTILPMLQNDTKPVLYATATRVLCKTWEINDRVFGSLQ
SVLLPNRFIQYASQRDICISMAISIRDVCKRDPDRGVDLILSVSACIESR
DSSIHTIGLLSLAHLCEADVIDFYTAWGVIRKHLLNYLENPIICHGVSLL
LRCGAMDAAVFPEAANDILHILWEIGTTLHPASELMWTKARAAAFESLTY
YEVLHVQNSTPEFRERTMELLTAETDTEVLWAMEKFVINIIKFEHQTRQR
LVKEKRVPRNKIEKLVNISPQLNFKQGDDRKIRDLPGAALFSLTFTHDVN
KPGAAKDLHAKFRTALLDIAASLHLSRNISVAVLSFQSWKIFMQRWIKEQ
IMLNDVKGLSTSLNNTNKPANDILKSIIQIAEESIPRLAENIALAVGAFC
MVLPASAHAVKSTALNFLLKWLYQYEHEYRQWSAAISIGAISSNLHATDY
KQKFQNINALLEVASICKSTLVKGACGLGLGLSSQDLITRVKVDDESDSH
KETYMMQETYLLGRIVRALCQMLSKITRLSSDALELQSICAYFGQATDAG
DSESFLIIHDNLEEDVWGIAGVVLGLGNTVAAVYRTGNHDAVCKINGLIS
SWMRHVNPLIINSTTSEKIELALLVGSCLALPNLVDFFQRVDDLDDSELD
NLISSFKDLISELVSVNKSGVLYQSLLFASCTGVGNLLACILNEGVHLVR
VEYVTDLLMLFKKCYTASYPPLVHLGGMLGIVNILGAGAGFLFQRDCSTF
LHPVHDLKNSSYITGSLLSSSAMEPNLVSLVQDIFLVSQNPDDQQLQSYA
AWAISFLRHYLWYRNVRNEDDNSQRDAVGSKFVSSNPPDDSLVMKLSLWL
MNHSFPGTGTAHVNTVLTALRCLTSAPRLPLLDWGAIIRRCMRLNSVDHV
LLPSDSASSRRVFVREECLLFSLAHAKEFDPLLSLLDELSDLPRFRMLEL
NMQSFLLSRLADMSKVFSGSRIEKLFDDVANFVKLLVPSHQLYNSEQKSL
LRISCWKGLSLCLMGATADGEDHVSYMENCLKVLFCSTSSSAVVGQDHLS
EEWSAAIKCLAQARQPWLLDFFKPRDTLQVSEVDFRSGDMYFLEVKKKIQ
ATCMLARTGSIPLSHIGSLKAYMLNTRSQDIWEVLVEVAATLQNADGSIK
RQWVLDAAEISCVTRHPLTAMQFLGLLCGSFSKYMPFLIVDRMTVLCDFP
VALASLLSETSWGNVAESVVSLLWSTTERLHDWVTNTEIVLSDSPISQSI
DQSEDSMADFLLKLLHHTCVSLKDYLPMEKQLSLANMVIP*

Publication:

Iorizzo M, Ellison S, Senalik D, Zeng P, Satapoomin P, Huang J, Bowman M, Iovene M, Sanseverino W, Cavagnaro P, Yildiz M, Macko-Podgórni A, Moranska E, Grzebelus E, Grzebelus D, Ashrafi H, Zheng Z, Cheng S, Spooner D, Van Deynze A, Simon P. A high-quality carrot genome assembly provides new insights into carotenoid accumulation and asterid genome evolution.. Nature genetics. 2016 06; 48(6):657-66.

Relationship:

There are 2 relationships.
Relationships
The mRNA, DCAR_001437, is a part of gene, DCAR_001437.
The polypeptide, DCAR_001437, derives from mRNA, DCAR_001437.