| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017397186.1, is a part of gene, LOC108223105. |
| The genetic_marker, MK006445 K3889, is located in gene, LOC108223105. |
| The mRNA, XM_017397188.1, is a part of gene, LOC108223105. |
| The mRNA, XM_017397187.1, is a part of gene, LOC108223105. |
| Name | Description |
|---|---|
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 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. |
| Transcript Name | Identifier | Type | Location |
|---|---|---|---|
| XM_017397187.1 | XM_017397187.1 | mRNA | DCARv2_Chr5:20292362..20300833 |
| XM_017397188.1 | XM_017397188.1 | mRNA | DCARv2_Chr5:20292362..20300833 |
| XM_017397186.1 | XM_017397186.1 | mRNA | DCARv2_Chr5:20292362..20300833 |
TTTGGGACGGGTAATCAAGTTTGCACTCCCCCAATTATCCAGAAACTGCT
GTTATTTCAGGACACCATCGTCTTTGACAGAACACAAACACATGGGTTGG
GTTTAAGAGTCTCACCAGCAAGCTGCAAAACCCAAACAATGTTGTCTCTG
GTGTCTTCGTCATCAACACCATCCTCATCTTCTTCACTTTCTCAATTCCA
CCAAACATGCTTTCTTCCATTCTTACCCCAACGCCTACTCCTTAACAGGT
ACCTTTATTCACTTCACTCATTACTTTTTTCTCTGTTTATTCTTATTCAC
ACATCTTATTGTACATTAGTTATAACTCTATAGCCTATAGGAGTAAGCTT
CATGTTCTAGAGCTTGGTCTCTGCAGACCTTACCTGACCGTTATACCCCT
ACTCCTTACAAGCTCTTTGACTACCGCCTTTTAGGATTAACGGTTAGAAT
TATGTTATGCTTGTGTTATTCCACTCGGCTCTATGGATTTCGGACATTAT
GTTCTTTTTTTTTCTTTGCAACTCCCCGTTCATCATTCTTCCCAATTAAT
CAGGTACTTCCTTTGGTTGGAAAGAATAGAATCGTATGAGAGGACTTTCA
TGGAAAATAATGTGAGAGGAGAATTCTTGCTAGGTGCAAGGCATTTTATT
CGGTTGTAGAAGGGGCATAATGCTGAATTGCTGATTAATGAGTGTGTACT
ATGAGGGTTTTTGGGAGGTTAGCTCATAGACACAAAGTCTTTACCCCCAA
TGTGAGAGTAGAGTATCTTACTTATCTGGTGTTTAAGTTGCATTTGAGGC
CCGACTATATATCTCTATACTTTATATGATGGTAACGATATGAAATTATC
AAATCCGCAACTTACTATACTGGAATTAAAATTTATTACTTGTAATGAAA
TTATATTAGTGTTACAAAAATGAGATATTATAATCCCGATAAATTTATCA
CAATATCATTCTTTCATCTACGATATAATTCTATTAGAAAACTATTATAA
CTTTTAAATAATCTAGAATTACAGCTTAGATGGATGTTTAACAATATATT
TATCATACATAGTAAGTATTATGATTAATAATATGGTATTTCTTCACATT
AAATTAGATAAAATAAAATATTTTTATTGAAAGAATAAAAATGAAAATAC
ATTAACATCAATTATTAAAATAAAATAAGAGAAATGATAAAATATTAAAA
GCAATCCATGCAGCTTATAAGCTATTATATATATTTTAAACAAACACATT
AGTGTATGTAAAATTGTAAACCTTCTACAGAACAGTGTCTATTCATCAGC
TTGGAAACAAGACTGATGAGAACTCCATGTTTATGAATTGTGATATTGCT
TGGATCCGAACTCTGTTACACACAACTACTTGCGCCTGGCCAGAATGTGA
CTGCTGACTAACTGTTTTTGGAGAAGTAATATGCTCGACTTTGTAACCTG
TTTTAGTTTTTGAATATATACTAACCATACTGCATCTTTATGTTTTGTTG
CCAATGTGCCACAAAATACTGGCATCCTATCGAACAGTAGTATTTGGCAG
AAAAGCCCTTCTGAGGAATTTCATTTCAGTACAATAAAGTGCAGACTTGC
TAGGGTTAAAGACCCTCCTCCACCGAGCCCTGATAATTTGATAAAGGAAC
CTCACAAGTACTTTGATCAGGTTATGGTCACAGTTCGTGCTGGTGATGGA
GGTCATGGTGCAGTTCTTACTATGCCTACCCCAAAAGCTCCTTCCAAATC
ACATACGAAATATGATAAGGGGAAGACAAGGAAGCGAGTTTCATTCAAAC
GAGATTTTGATGGTTCACTTATCCTTCCGATGGGTGGTCATGGCGGGGAT
ATTGTAATCTATGTAGATGAGGGCAGGGATACGTTACTTGAGTTCCACAA
AAAGAGTCGATTCAGTGCAAAACGTGGAGGGAATGTTGATGCTATGAGTA
TTTTGACATCTCATCTAAGCAATGGATCTGCTGGCCCATCATTACGTATT
CCGGTACCCCCAGGTTGGTATATTACATTGTCAAATTCAGCCTTTTGGGC
TTCTTTTATATATGTATAAGTTGTTAACTAGCGCTACTTATTTCAAGTAA
CAAGTAAGAATTTAAGGAAGCCAAACAGCTTCTTTTATTTGTCATCTTTC
AGAATTTTAATTGGTCAAGTATACAAAAGGTGGATAAAACCATACATCTG
GATGGTTTGTATTCCCTATTTTCATATTTACAGCTTTTGGTAGATAGTAT
AATGGAAAAAATATGACGAGTTGATCAGTATTTCTGTTCAGAAGTGCAAA
AAACAGTCTAGTTTGATCTGTTTCATGATTATATGTAATATTGACAGGGA
CGGTTGTAAAACATAAACGAGGGAAGTTTTTGGCTGATCTGGCACGCCCG
GGTGATGAAATTCTTGTTGCAAGGGGTGGACAAGGAGGGGTAAACAATCT
GTGCTCTCAACTAATATATGTGATTTTCGTCACCTGACAGTTTTATAAGA
AACATGTGTCTCTCATGTAGTTCGTTGTATTGTTTATGCAGCATGCTTGC
GAAATCGCCAGTATATCAGATAATGGAAACTTAGAATATGAGATAAAGAT
ATAAAGTGAAAAAATTCCTGTACTGTTCATGGAATCAGTATTTGTTAGTA
TTTTTTGATATTTAACTTTGTTTGATTGTGGCAGATCAGCTTATTGGAAA
TGCCAGACCACAAAAAAAAGAAAATGATGACTATGACATCAAATGTAATG
AGAGATGAAAGTGATAAGGTAAAAGTTGAACTTTTCTGTTATCACTTATC
ACCCTATGTCAAAAGTTCTATCTAGGGATGGGCATTAATCCCGACCCGCC
CGATCCCGAACCGATCCCCGCACCGAATGGTGCGGGGATTCGGGGATTTT
TTTGGGTACGGGTCGGGGAACAGGAACGACTTTAAAAAAATATCGGGGAT
CGGGCCGGGTACGGTTTTTCACATTCCCCCGGCCCNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATATATATATATATTAT
AATTATTTATTAATATGTTTATATACCTCTTTAGGTGCAACTTTAGTCAT
CACTTGTTTATATATTATATATATTATAATTATATATTTAATATAATTAA
ACATATTGAAATAAATGTTAATATTTAATTCTATTAAAATAAGTCTTAAA
ATTAAAAAGGTCATAATTAAATCATTGAAGATAAATTAAAATAATGAGGT
ATTAATAAGACATATTAAAAACTAATCATAATTATGAATTTAAGTATTTA
ATTAGAAATTTTGGTTTAAATTAAAAATCCCCGAATCACCGCGGGTATCC
CCGAATCCCGATCAGGCCGGGGATGGGGATCGAAAAATAATCCCCGATGG
GGATCGGGCCGGGAATGGGGATTGGGTTAGGATTCGGGGATCGGGGCCGC
TTCTAGCGATCCCCGACCCGAAGTGACCCGATGGCCATCCCTAGTTCTAT
CTGATATTCCTGAACTGAATGAATTATCTCACTTACCAAATACCTCTCTG
AGCATCTCATCGTTATTTTATATATTTAGTTATATGAACAACTGTAAGTT
TATAACATGCCAATGTAGTTATCAGGAATCAATGGTTCCTGAGATAGTTT
TTAGTGTATTTTTCTTTGGTTTTATAAGAGAAGTAAGCCTATAGAACAGG
CAAGAAAACGAGTAATTTAGCAGTAGAGAGAGAGTTCAGAGAGATAGAGC
TCAGAAACGTAGCAAGAGAGATGGATATCAGTTAGAAATTAGTAAAAGAA
GAGAGTTTTTAGAGAGTGAGAAGCCCAGAGAGAGTGGTGGAATAACATTC
ATTTCATATATTCAAAGCATAATAGAAACATACACCTGGACTAACTAATG
AAAAGAAGACTATAATGCCCTTACTATTTATATACTTCTACCAGTGCTGT
TCTGAACATAAGAAACTTCCCTTTACTACTACTGATAGTCTTATGCTGGC
TAATCCTGGCAAGTTACTGCATAGTGCTCCTTGGATGTACCTTCAAATAA
TAGTGATTATAAACTGAATTTCTGCCATTATCTATGTAATAAAAAATAGT
TTTTTGGATATTACTTTTGTCTCAAAGATTGATGCGAGATTTATTAGACT
CTGGATAAGGCTAAAGGCAATGTGGTTCCGGCTTATCCAATAAAGCAAAA
GAAGGTACTAAGGTGTCATTAAGAAATAAAGAAGTATGTCATCTGAATCA
GATCAGCAAGTATCTATGGACTACAGTTCTTACTTCTCTAGATGCATGAA
AAATGGTGTTGTGAGACATACTATATTCACGGGGACCTACACTTACAGTA
CTGGGGGGATAGGCCTCCTCTCAATCCCCAGCCCAAGCTTTATATTTGAT
ATAATTTAGTCAGTGTCCCAGTCTAATTTACAAGTGCCCTTTATTCTGAT
AATAGGCAAGTGCCTGTAAAAAAAAAAGCTCAGCTCATTAAAATTGTAGT
TCATCAGCATAGTTTAGGTTCAAAATATTATGTGTATACAGTATATACGG
GCTAATTTTAGTTATGTGAAAATCTAGAAGCTTCTTTAACTGAGTTCTTT
GTCTCTTTGAGGTAATTCTGTTTTTCTTTTTATATTTCACTGCTTGTTTC
TTTCTTTTTACTATATAATGCTGTCTTTACAATTTTTTGTTAGTTTGTTG
TGCCCCCGGTAAAATTTATTCCTGGGTCTACCACTGATACATTATACGAA
TTGCAGGTTCTACTTCTTGGTCAGCCTGGGGAGGAAGTTAGTTTGCAGTT
GATACTAAGAGTAGTAGCTGATGTCGGGCTTGTTGTAAGTCCTTGTGTTA
TTAATCTCTTAAGCCTATATGCATACAGACAACTTATATTGTTCAGACAC
TTGTGCAAGCTTCTGTACACCCACAGGAACACTCATTATCTCTAGTTTTG
CCCACCTGAACCTCATTAGTTGAACAGTTTTATATTATTGTAGGAGACTT
GAAGGGTTGTCTGAAGCATTTGTATTGGTTAAAAACTAGCATGTATATAT
TTAACCTATCCTCTTTTTTCTATCATATATACTTTAGACTTGTAATCTGC
CCGAGCTGGGCGATTTTAATACAATTAAATGTATTGACTTGTTGATTGTT
AATAGTTTTTATATGTAATTTCTTTCCAGGGACTTCCAAACGCTGGAAAG
TCTACCTTACTGGCAGCCACTACCCTTGCCAAACCTGATATTGCTGATTA
TCCATTCACAACCTTGATGCCCAATCTTGGACGCCTCGATGGAGACCCTA
GTTTAGGTGCAGGAAAATATTCATCTGAAGCAACATTAGCTGATCTGCCT
GGTCTTATTGAAGGTGCACATCTGGGAAAGGTATATCAGGTGCTGGCTTT
TTTTTGAAACTCCTGTAGCATGCACTTAACCTTGTCTTCTTACAGGGTCT
TGGCCGCAATTTCTTGAGGCACCTGAGAAGAACTCGATTATTAGTCCATG
TGGTGGATGCTGCTGCAGACGATCCTGTAAACGACTACAGGACTGTTAAA
GAAGTATGTATATTTCCATCCATAGAACTTTTACGTAGTTTCTTTGTTTC
TAACAGTAATTGCACACTGGTGGTATGTAAATTATTTTTCCTTTTTGCAG
TTCAATGGCTGCATTATAAAGAATTGAGCATTTTGGTAGCCAGAAAAATA
TTATATATTTTTGTAAAAGCACGGACTTCTGTAAGAAATGTCAGACAGAG
TTTTGAATTGAGTGTCTATAGCTATAACTTGGTCAAACATTCTTCATCTC
TCCTGGAAAACCCTATTAAATGATGGATATGTTCTCTGCCATCTCCATCA
GCTTGAACATTCTCAAACCCTATCGAGAGACCTATATACTCATTCCAGCA
ATTTAATAAATGGTTCTAAAGTCTCAGAGTCCCCAGAATCTTTGTTTTTC
CTGTAATCTTGATCATGGATGTCCAATATTATCCTGGTAACTTGAAGCCT
ACCTTGACTGACATCCACTTGAGTTGTCTACATTTAATACATGACATTGG
TCCAAAGAACTTCTCTCTTTCTCCTCTTTCCAACTTCATACAAAGTCTCA
TGTCTTACTTCCTGAGTTGGCCGCAAAACTTTTGAATCACACACATGTTT
CAGCTCATGAGTAATCTATTTCCTTCCCTTGAATTAAACTTATCTGCTTC
AGGTTATTTGTATGAGAATTGTCTACATGTCCTAAAACTATCTTACCTGA
TCTCTAATATCAAATTCCGATAACCCACTGAAATTCGATATAGATTTGAC
TCCATAGCCAATTGTCACGATCGAACCTTGACAAACCAAGCTATTTTCTT
GTTTTAAAACCCAGTTAAATCTGACAACTCCCAACTAAACTAGTTGATCC
AGAACTCCCTAGTTTAACTTTTTGAGAAAGGGCAACAAAGTTTATAGTTT
TATCACCCTTTTAAGTCTAACAAATTGAGATGTCAAGAAAATTCATGAAA
TTTTTCACGGACTCCACCATAGTATTGTAGTACTGTTTAGTCCCGCCATA
AACTCCATAATCTACAATTTTGATTAATTGATCTGGCTACCACTATAACA
CTTCTGAATTTTCTTGTCGTGAATACATCATCCCTCTTTCTCTTTGTTCC
AGTATGGAATTATGAAGTGTCTAATGTATATAGTATATACTTGCCTGACT
GAATAGTATAGGATTTTTTTTTTGTGAAAAATGTATAAGCATTAAGTATC
TTTCTTGTGCAGTTGTTGGTTTAAAATATGCTGAAAATATCAACTGGTTT
GCAGGAATTGCGTATGTACAATCCTGATTATCTCGAAAGACCTTCCATTG
TGGTACTAAATAAGATCGATATTCCTGAGGTTTGTATCTCTATCTTTGCA
TGCTGGTATTCAACATAGGTTGTGTGGTTTGCTGTATAATTGAAACTGGA
ACACACTTGGTTTGGTAATTGATGCAATTAGTATGTTTGTTTCAGTGTGA
AATTTAACATGGATCCATTAACATTAAACTTTGCTGCAGGCATTTAACAA
GCTTCCGTATTTGAAGGAAGAAATAATGAGAATAGGAAGTGATGAGCCAA
GTGCTCAAGTTGATTTGAACTCTGAAGATACACTTCAATCACCTTCCTCA
TCTAATATGGAACAAAAAGATAATCTCTCTTCAGAGATCTCTGAGAAGGC
TAGAAGAATCAAAGAAATTGAGGAATATCCCCGTCCAAATGCTGTTGTGG
GGGTCAGTGTTTTGTAAGTTTCTAATTTTGTTTTTATATTATAAAAAGAA
GACCACATGTGTTTTTCTGCCTGTTGGAAAGTTCTTATAACATTACATGA
AATTTTTATATGACATGCATCATTCTGTTCCGGCTTGCCCCAACCCTCAA
TTGCCGCAGTGACATTTTGTTTAAAGCAAATGAACAGTTGGATTCTTTCC
TGATGGGGGATACATTTTACATGATCGTAAGGGGCAAGAAATGATTAGGA
ATGCTTCAGTATGACGCAGGAAAGCTTGTGTTTTTTGTCACAAAGACTCT
GAGAATTATTACCAATAATCAATTGGTAGGAAAAAGGCATTAGGATTATA
TTGGTACCCATTTAATAGTTAAATATTTGTTAAGCCTAAACTAGAAGTGC
AATTCTTCATGTTGTGGGAATGATTGCTACTTTTCTTTTCATATCAGTAT
CATGCGTTCAAGTTCAGTTTCCACTGAAGTTTGTGCCAAGTTGGTTGTTA
ACCAAAGCATATTACAAATATAACTTGAATAGGTTTCCAATATTTCAATA
TAACATATTGAAATTTGGTGATTTGTATACATGAATCTAGTGATTTGTTT
TGTTCCCCACGGTTTTCATTATAATATGTTTCAAATTTGAGCAATTGACT
ACATGTATAATTGTATACTGGGGTCAAACAATCAGTCGACTCATGACCTA
GATACCTAGTCACGGGAAGGGGGAAAGGACACACATACGACTTTACCACT
AGGCTATCCCTGACCCCAAAATACAGCAGTTCTACACATAAAAAGTAGTT
ACATATAGACCTGTTTCTTTGTATTGTAATGACTAATGTAAGTGTTATCT
GTATGTTGTCCTTGGTATTGTAATGACTAACGTATGTGTTATATTTTTCA
TGTTGTTACTGGCAGAAAAGGAACTAATATCAATGAAATGCTGAAGGAAA
TAAGGGCGGCCTTGCGCAAATGTAGTGATCCCAATGAAGTGTTAAACAAG
TAGAGCAATATCATGAGAATCATTCATATGTTCGTCTTAGAATATATATC
TGTTTGTCCTCTCCCTCTGAGATCTAGCAAATACGAACAGATCAAGGAAC
ACAAATGATATATGTTTAACTATTTATTTTGATTAGATGGCATCAATGGC
AGGTCATGCATTTACAATATA