| NCBI Gene |  |
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| Relationships |
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| The transcript, XR_001802438.1, is a part of gene, LOC108199527. |
| The genetic_marker, MK003831 K1275, is located in gene, LOC108199527. |
| The transcript, XR_001802437.1, is a part of gene, LOC108199527. |
| The transcript, XR_001802439.1, is a part of gene, LOC108199527. |
| The mRNA, XM_017367368.1, is a part of gene, LOC108199527. |
| 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_017367368.1 | XM_017367368.1 | mRNA | DCARv2_Chr8:23872479..23879423 |
CAAAGTATTTCGTTCCAACTACTACTAGCAATACATGGAAATACACATCT
ACATCTTCACCAAAATGTTATTATATCCAGCTGACAAATCAAAATAGATA
CAGATGCTGTATCTAATCTAACCCGAACTACATTTGGGGCTTTCGACTTG
TTTCATTACATCCTCTTCATGCTACAATTCACTTGCTATATTCTCAATCT
CGTTTTCTAACATCCTTAATTAATCTGTGTCTATTCTCGTCATCTCCAGC
GCCTCGAGTTTGACACAATTAAAAATGAATTCCGTGTTGCCATCGCCTCG
ATTTCCTGATTTGAATGGGTTTCCTGATACGACGGCGTTTCGAGTGGAGC
CGAAGCTTGAGCCGTTGGATGAAGATCTGGAGAGTCCACCTGGGATGTTT
ACCCCGGGCTCGAGTGCTCGTAATCGAAACCCGGGGTTTGATCTTAATGC
TAATGCTGATGGTGTTGCGAGTGTTGGTACTAGTAGTGGTGTTTCGAAAG
GGGCAGCCGCGCCGGAGGCTAGTAATGTGTTGAGTGAATTTAATCGGATA
TCGGAGATATTTAATTCGGCTTTTACGAGTGGGGGGTGTGAGGAGGAGGA
GAGTGTGATGGAGGAGGAGGAGAGGAATGAGCTTGCGCTTGCAATTGTGG
CGGTTCCCGAGGAACAGGCGATTGTTCCGAAGAAAATTAAGTATCCTCCA
AGGTCGAATGAGCTGGTTAGGGTTACTAATTTGACCGAGGAGGATGAGCA
GTATTATAGGGAGATTGTTAGGAGAGCGAGGATGATCTTTGATTCGCTGA
GTGTTTCTGCGGTTGTTGATGATGATAGGAATATTGCGGGAGGGACGTTT
GATAGGAAGACGAGGGGGGATACTAAGGCGGCTGGATTGATGAGGGAATG
TGGGTTGTGGTTGAATAGGGATAAGAGGATTGTGGGGGCAATTCCGGGGA
TTGAGATTGGGGATGTGTTCTTTTTTAGGATGGAATTGTGTGTGCTTGGA
TTACATGGACAGGTTCAAGCTGGGATTGATTATTTGCCGTCTAATAGGAG
TTCAAATGGGGAGCCGGTGGCCACTAGTGTTATTGTCTCGGGAGGGTATG
AGGATGATGAGGATTCCGGGTATGTGATTACTTATACTGGGCATGGTGGG
CAGGATAAGAATGGGAAACAATGTGCGCATCAGAAATTGGAAGGAGGGAA
TTTGGCATTGGAGAGGAGTATGCATTATGAGGTTGAGGTGAGAGTGATTA
GAGGGTTTAGGTATTCAGGTGCGAATAGTGGGAAGATATATGTGTATGAT
GGATTATATAAAGTTGTAGATACTTGGTTTGATGTAGGCAAGTCAGGTTT
TGGGGTTTACAAGTTTAAACTCGTTAGAATGGAAAATCAGCCTGAAATGG
GCAGTACAATTCTTAAGATGGCTCAGATGCTTAAGACTAAACCTTTAGAT
GTCAGACCAAGGGGTTATCTTTGCCTCGATTTATCTGGCAAGAAAGAAAC
TATGCCAGTTCTTTTATTTAATGATATCGACAATGATCAGGATCCATTGC
ATCATCAGTATTTGGTGAGTACTGTTATTCCCAAGTATGTTTTCCAGGTC
GGGAGCCATAGTGGTTGTGAATGTATTTCTGGATGTTCATTCGACTGTTT
GTGTATTCTGAAGAATGGTGGAGAGTTTCCGTATGACAACAAGGGGATGT
TAATTAAAGGAAAACCACTGGTATTTGAGTGTGGCCCACAATGTCGATGT
CCTCCGACTTGTCGAAATCGTGTCAGCCAGAAAGGGGTGAGAAGTAGGTT
TGAAGTCTTCCGATCAAGGGAAACTGGTTGGGGGGTTAGATCATTGGACT
TAATACAGGCTGGTGCTTTTATCTGCGAGTACGCAGGAGTTGTTCTCACT
CGTGATCAAGCTCAGGTGATTTCTATGGTTGGTGATACTTTGGTTTATCC
AAGCCGGTTTGCAGAGAGATGGGCAGAATGGGGGGAGTTGTCACAAATAT
ATTCCGATTATGTGCGTCCTTCGTATCCAGCAATTCCTCCATTAGATTTT
GCCATGGATGTGTCAAGCTTGAGGAATGTTGCCTGTTATATTAGCCACAG
TAATTCTCCAAATGTTTTTGCACAGTTTGTGCTTTTTGACCATAACAATG
TTATGTTTCCCCGCACTATGCTTTTCGCAATGGAGAATATCCCTCCCTTG
AGGGAGCTTAGTCTCGATTATGGGGTGGCAGAAGAATGGACGGCGAAGCT
TGCCATCTGTAACTGAATGCATTCTGAGGTTTGTTGCAGTTCTTGAATGT
GATGTTCTGTTTTCCTGCACTGAGGTATATACAATTTATGCAACTTTTTA
TAATATTGCTTCCTGTGGTTTGCAACTAATTGGTTATGTGTACGGCCATG
GTTGGATAAAACCTTCACTGAATATACTATAGGGCAGAGTCATGCGTTTC
ATCTATTTTAACTGCAGTTAATCTCTTTATGAAGCATATACCAGAGGATG
GGACCTATATGCTATAGTCATCTAAGAGAAGCGAATACGTTAATCTACTT
CTATATTTGTTGCATACTGTGTCGTGTGTTCTTTTTGCTTTTAAATCTAT
ACGATTTCAGTACCTGTTGAACTATTCTCTTTGATTTCAGTATCAGTCAA
ACTTTGTTATATACACATGTGAAATATTAAAGTTTGTATTCATGTTTAAT
TTTGAGCCGGATTTTGGTATGTAGTGGCTAAATAGAATAGTGTTAGAGAT
TGTATTGTTCGTAATTCATACTCTCTAAACACCAAATCGACAGGGTCTAA
ATTTGCTCAATTCCCCTGCGCCTCAACCACTAATCTATCATAAAAATGTT
TTGTACCTTCACTTTTTAGTTTGGGACTAATGCTTAAGTTTTTCAAGCTG
GGGTACATTATAATGATGCCCCAGTCCTCAAAAAGTGAAAGGGAATGATA
CTAAAACGGCCATGTAAACTTATTCTAACTTTCATAAAATTTAGTGTTAT
AAATTGAATCATGTTTTATGGAAGGAAGGATATATGGTTGACAGGCTGAG
TGGCCTTTTAGCAGGTTTGCTGTTTTAAATTTAAACTTCAGGAGGTGAAT
GGCCTTTTTGCAGGTTAGCTGTTTCAGTTTTAAAACTCAGAAAGAGGGGA
TAGGTGTCTGCTCTTTGTAGTATGAAGTTCTGATTTGGATTCGGGTTCGA
GCTCGAGCGAGCTATACTTTTTAAGCTCAAAGTTCGGCTAGAGAGGAATT
CAAAAGGTTCGAACTTGGCTTGAAAGCTCGAATCCATTTGACTAGATATT
GACAAAAAGCTCGAATGTGATATATTCGGCTCGAGTTTGTCGATTTGTTT
TTTTAAAATTTATTTTAATAAAACCGTCTTATAATAATATATCTGTAATT
AAAGTGCACAATGAACATCCAAATCAAATTAAAAGTATAGAAAGGAAATA
AGGTACGAATATCAGTCTTCGAAACATTCCGGGCTCAACTACAGAACAGT
AATGTAGCAACACAATAACAAAGTACCGATAGATAGCGAAACTGGAAATG
AATAGACTATATAATAGTCTACGAGGTTTGAGCTGGCGAAGCGGTGGGAG
CAGGTGTGCGAAGATGGGAAATCATCGTGCGAAGCTCATTGGCAATGACA
TTAAGGGCGATCTGACTCTCACGCTCTCGTGCGGGATCATCAACTTTAAC
CTATCCTCAGCCATCCTAACTATCTCCTCAAGCCTAGATATCAAAGTAGG
CCGGCGGCGCTCATCACCCCTATCTTCTTCGTACAACTCATCAATCCTCT
GGCGAAGGATTCGGTTCTCTCCTTGCACTCTGTCAACTAACCTTACCATC
TCCTCATATAAGGGAAATGGCACGGTATCGGGAAATCCGGAAGTGGACGA
AGACGATGCCTGCCAAACAGTTATATAAATACATATAGTTATTTATAATT
ATATACATATAGTTATATAAATATATAACCCCTTTTTATTCACTATATGT
ATTTATATAACTGTGGCAGGCATCGTCTTCGTCCACTTTCGGATTTCCCG
ATACCGTGCCATTTTCATTATATAAGGAAATGGTAAGGTTAGTTGATAGA
GTTTGAGGAGAGAACCGAATCCATCGCCAGAGGATTTATGAGTTGTACGA
AGAGGATAGGGGTGATGAGCGAATGAGCGCCACTGGCCAACTTTGATATC
TAGGCTTGAGGAGATAGTTAGGATGGCTGAGGATAGGTTGGAGTTGATAA
TCGATGATCCCGCACCGAGAGCGTGAGAGTCATATCGCCCTTAATGCCAT
TGCTGATGAGCTTCGCATGGCGATTTCCCATCTCCGCACACATGTTTTAC
CCGCTTCGCAGGCTCAAACCTCGTAGACTATTATATAGTCTATTCATTTC
CAGTTTCGCTATCTATCAGTACTTTGTGATTGTGTTGCTACATTATTGTT
CTGTATTTGAGCCCGGATTGTTTTGAAGACTGATATTAGTACCTTATTTC
CTTTCTGTACTTTCAATTTGATTTGGATGTTCATTGTGCACTTTGATTAG
TCTTGCGAACCTCACAACCTGAGTAAAAGTTCGAGCTAGGCTCGACAGAG
TATGCGAATAGCTCGGCTCGATTATCATCAAACCTGGTTCAAATATATTA
TGAGCTGAAATTAAGGAGCTCACAAGCAGTTTAAATCAATTACACCCCTA
TGTACTAGAGTATGAGAAGCTAGCCGGCACTTCAAAATTTCGGTCACCAA
ATATTATTTCTCTAAAATATGCCTATGAACGAAGTACATCAAGTGATTAT
TAGTTGCAAATTTTACATATGTAGACTATTAAAGTTTTCCAGTTAGCAAT
ATAACAAAATAACAAAGCAGAGTGTTCAATAAGGAAATATTGTTTTCCTT
AATGACCCATCAGTATCTTATGTATAGTAGATAACTCATACCGCTCAATC
CTTTCAGTAAACACTCCCAGTTTCGGCCCCAATCTGGATAAATTGTGGTG
GTAGCTGTATGCCTGTATATAGCTCTTATTACGTGCTCATATTGTAAAAT
ACTGAAATCTATTAGCTTCGGTTCCTGCAATGATTATATGTTAAACTAGT
TTCCTCATAATAGAGTATCTTCTCACGAGTACATCTATACTTGTTAAGTG
GCTGTCTGGTAGAAATAAATTTAATTGCTGAATAATTAAACAGTGCTGAG
TAAACTGGCCCCTATGTGAAAATATTGCTGAATTAAGAGAAAGAGGAGTT
AATTGCAGTTCGTATCCCCAGCGTTAAGCCAAAAACAAGTAGTACCGACT
TCGCATCGTCCCTTAAATGATTTCCTTCCCTACAAAATTATTTTTAATAA
AAGGGTATTATTATCAAATGAACCTCTATAAAGCTAGTTTTTGCCTCCAA
AGCAGCTCATCAATCAAATCCCTAGAACCAGTAACCACATTAAATTCACC
AATTCAAACCTTACTTTGCATATGTACCTTATTTTTTCGCTTTGCTAATA
CAGTAGATAAGATTTATCAGAGCAAATATGGACTCAATCATTTCGTTGTG
GCCTTGAGTGTTGACAAACCAAAATCTGACCAAATTAAGTAAAAGTTCTG
AAAAGAACTAAATCTTCAGTGTGTGATATTAATTATAACTAGCTTATAGC
ATGTGCAAGGGTGACTTGTAATATTTGTTCTTTTATTGTGTGTGTTTTAA
TATTTGATTTTGTTTCTATGATACATTTATGCTATAATAATATGCTACTT
CTATTTAAAATAGGTTTTTACATAACTAGTAGATGTGTTTGAAATAATAT
ATATTTTTATTGGGCATGTTAAATAAGTTTCTAATAATTAAACCGGTTAA
AAGATTTATAAATAAATATTCCCGAGAAATATGTTTCAATAAGAACGTTC
AAATGTGTTTTAATTATAATAAAAAAGACCCATTAAGACATGTTATAAAA
TAAAGAGACCGTAGACCCGCCCCAATACTGACCGATCGACCACAAATCCG
ACCATAACTTTTTAGTGTTTCGGCTTTAATAGCAGGTATAGATATAATTT
ATGATGAATTATTATTTTGTTTACAGCAAGTCGGTAACACTGAATAACAG
TCGTCGTTTCTATCAGAATAAGCTACAAACCAAAAACTGTGTCTGCCAAC
ACAGAGATGCCCTGATAATTTTCTTTTTAAAACTTATTAGCTGCTTCCCC
TTTGGAAAAAAATTAAAACTAGATTGCTATTTAAGAGGTATTTGGCGCGC
GCGCGCGCGCGCACACACACTCCAATACAAACCACTAAAATACACTAACT
TAATACAAACCGATGCAACTAAGAAGAATGGTAATGGGAATGGTAGGGGC
CAAGATTTGGCTCTAGGGCTGTCTGGAGCCTGTTAGGGGTTTGCCCGAAG
CCTTAGTGAGACTCTAGTGGGCCTGGGCCGCCTGGCTTGGATTGAGTGTG
GCCGGATGTGGGCCCCAGGAGTATATCTTCAGTTTGATGACTGGTTTTAT
TAGATCCCTCCGATAGTATTTATATGGATTTTTTGCTCAAGGTACTGATA
GTAACCGACTGTGAAAACTAAATTTGGCTTTGTGCAGATATCAGCATTCA
TGTGGAACGCAAGGGTTGGTGCATTTTTGGATTAATGGAGCAAGCGCAAG
TATCTTGATGAGACTACCGCTACTTTACTAGCACCGCCGAGTAATTACTT
TGCACGAACAAACGTCAGGAGTAGGTTTATTTATCTAACTAGTTGTATGT
ATTAAGCACGCATATAATTCTGTACAGGAATTGTATAACATAGCTGTACT
GCCTTCCTGTTTTAGGCCAGGAGGTCATATATATTGTAATTTAGTTACAA
CTCTACGGATAGTGCACACTGAGTCCGATTACGTTTTTATGAATGAACAA
CTTATCTGTAAAGCATCATTTGTCTTGAATGTGTGCTTGAACCA