| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017402151.1, is a part of gene, LOC108227153. |
| The genetic_marker, MK009673 6_24143488, is located in gene, LOC108227153. |
| The genetic_marker, MK005732 K3176, is located in gene, LOC108227153. |
| 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_017402151.1 | XM_017402151.1 | mRNA | DCARv2_Chr6:24139479..24146079 |
AGACATCACTTACTTTCCCTCCAATCAGGGACCACGGTGTCTGTGGGTTT
TCATTTTCTTCGTTAATCAATCTCTCTGTATCTCTCTCCGGCTCTCTCTC
TCTAAAAATCAACTTGTTCCCTTTGTTTAATCTATAATCATCTCTCACTA
GTCCCCCGGCGGGAGAGAAGGAAGTAGAAGAGTAGAAGAAATCATTTTTC
AAGCTTCTACGGAACTGCCCTCTGTTTATAATACTCTCCTTTATTAATTT
ATCTACTTAATCTCCACTACACTTCTCTCTCTCTCTCTCTCTCTCTCTCT
CTCTCTCTCTCTCTCTCTCTCTCCTCTCCTCTGTGTATATATCCTCCCTT
TTCAACCACACTCTCTTCCAAACCTTGGTGGGTCCTCCATTTCTGTGCAT
AATTAGGTTTCTATCTTCTTGGTTTTCCATAAAGTTGCCATCTTTATCTT
CATTCCTGTGTGTTTTTGTTCATGTGAGAGTCAGATGGTAAGAAGGCTAT
GAGGGTTCTTTGATTATCAGCTTATGTTTGTGTTTATCTTGCTCAAACTG
AGTTTAAGTTGTGTGTGTATTTGCTTATTTGTTTATTTTTTTTGTGTTCA
ATTATGTTTGTCTTTTTCTAGTTTTGATCAGTGTTGACCTTTTTTTTTCT
TTTTTTTGTTTGAGTGTTTCTGTATGATTTCACTTTAAGAATGTTAAAAT
TAGCTACTCTTAGAAATATGTGGTGTTAATTTAGGTGAATCAAACAGAAC
TAGTGTATGTGCTTAATGAAGGTCCAATAATAGAATCTTGTGTGTTTTAT
GAAGGTTGTTGGAGGGCTAATAATGGTATTAACTGTATTTGTAACTTGCA
ATCATCTTTTCACTTGAAAAGGCAGAAGAGAATTGTTTGTTTCTTGCAGT
AGATTTAGTAATGGGTGATGTTGGTTTAAAGTAGGTAAAGCCATGTTGCA
TGTTTTTGCTTTAATGACTTCACTTTTAGCCTTTACAAATATTTCCATGT
TCGATCACAAGTACATATAATATTTGTGCTTTGACTGATTCAGATTAGGG
CTGCATCTATTTGTTTCTGTTTCTATGTTGGATAGGTTTTGTAGTGCATT
CCACTCGAGACAATTGATGATTTGATAAACAGGATGATGCGAAAAATGGT
AATTTATACTTGATCATAGACAACCCGTGTACATTATGAAGACCGATAAT
AAGCAAGTTCTGGCCGGACTTGTCTTTTTGATGATCTATCCCAACACAAC
CTTCTCTTCTACCTGAACTTATCAGTAATATTATTTGTCAAGCATAATGT
GAACTCAAAGCGTGTATAGAGTATAGGTCTATTGTGAGTTTGCAGCTCCT
CACAACAAATTTTCTGCTGTACTCCAGCACTGTTTTGTTATCAGACCTTT
TTTGTGGTATAGTTGAATAATAGCATTTCGTTCTGGTTCTGATATCTGTT
TCAGAGGGCTTTTTGGCTCCTTTTGTTACCGTTTTTTGAATTTTGGATCT
TTATTCACCAAGTTTTGTTTTTCTCAATATGTGATACAGTGATACTTATT
TCAGGTAATGGTACACGGATTGCTTTAAATAATTCAATGTCAAAGTTCTC
GAGAAATTCTAGTACAGGTAATTATAAAGATGTTACTGTTTTCTTCGTTT
TACAGATTTAGGGAATGTTACCACTTTAACTTGCTTGTATTGACATTCAA
TTATCTTTATCATTAGATTCCTCAATAATACCCTCAGCAGACATATCAAG
AAAAGCAGGAAATGCTTGGAATATCCCTCACAGTACTGATGCGCATTATG
CGTCAACTGATGCTAGCTTGTTTTCAAGCTCCCTGCCCATCCTCTCACAT
AAGAAGTGTATGCTTGAGTTTAATTTTTTTTAAAGCTTTTTGGCCTAGTA
TCACTTGAAATATGATTGAGAATTGTCTTTACCTGTAGTAAATCACATCG
GACATTCTGGTCTATCTGTTGATGATGACTTTCCTCCCTTGAGCAAGATT
CGTTCCGGAGCTGAAGGTAAAAGTGCAGTTACCGAGTCAAATGCAGTTGG
CAACTTACTTCCTGGAAATGAAGATGATCTTTTGGCTGGTGTAATGGACG
ATTTTGATCTTAGTGATTTGCCTACACAACTGGAGGATTTGGAAGATGAA
CTTTTTGACAGCGGAGGGGGGATGGAAATGGACTTTGACTTCCAAGATAG
CCTACTGACAGGTGTCTCCAGTTTAAGCATGTCTGATGGGGTTCACAACG
GCATTGGTAGCCATAGTCTTACAAACAGTGGAGGGACAGTTGCTGGTGAA
CATCCATATGGTGAACATCCTTCAAGGACACTATTCGTTCGTAATATTAA
TAGCAACGTTGAGGATTCTGAGTTGAAATCCCTCTTTGAGGTATTTGTAG
TAATTAGTATCCATTTACCTCTTAATACTTGTGATCGTGTATAATTGATT
CCATTGATCTATATTTACTGGGAACTTTGAGTTTTTGTTTGTCAGATCCA
GAAATAATTATTGTTTTGTGACGATTTTTTTTTTTACTTTGCAGCAATAT
GGAGATATAAGAACCCTATACACTGCATGCAAGCACAGGGGCTTTGTCAT
GATATCATACTATGACATTCGAGCTGCTAGAACTGCTATGCGTGCACTCC
AAAATAAGCCTTTGAGACGCAGAAAGCTTGACATTCATTTTTCAATTCCA
AAGGTTTGAACAATGAGCTAATCTCTTGGCATTACCTTTGTACTGTTGTA
AGACTGACATCTGTATCATACTCGCTGCATACAGGATAACCCATCCGAAA
AGGATATTAATCAAGGCACCCTAGTAGTTTTCAACTTGGATGCATCTGTA
TCAAATGATGACCTGCGCAATATATTTGGGGCTTACGGGGAAGTAAAAGA
GGTGAGTCGTTCAAAATTATATCTTTTTTTATGAACCTATTGTTCAACTG
AAGATGGACACATTTTCCTAGTATTTTATTCCTGTTAATCCTTTAACCTT
TTTACAGATCAGGGAAACCCCTCACAAGAGACACCACAAGTTCATAGAGT
ATTATGATGTTAGAGCTGCAGAGGAAGCCCTTAAAGCATTAAATAGGATT
GATATAGCTGGGAAACGCATAAAGCTTGAACCTAGCCGGCCTGGTGGGGC
CCGTCGGAAGTACGTATCATAATAGCATTTTGTTGAATATACTAGGCTGA
AGCAAATATTCAAGATTTTTTTCTGTTTGTTGAGTTAGATTCATATGTGA
TTTATTTGCCTTCTACCTGTAGCTTGTTGCAACAATTAAGTCAAGAGCTG
GATCAAGATGAAACCTGGACATTTCGGAATCAAGTTGGTTCACCATTGAA
CTCTCCTCCAGGTATATCTCTCTGCATGATTTTTTATTAAATGAGACAAA
ATTTTATTAAAGTTTTTGACAACTAAATGCTCATCTGATGATGTGTAATC
ATGACAGGTAACTGGACACACTTTGGTAGTCCAGTTTCAGTTCAAGGATT
TAATCTGTCACCAGGATGGGAAACACTGAGCCCTGTAAATAGCAATCAGG
TGAAAATTCATGGATTGGCTTCCATTCTTCCGGCTCGTTTGTCAAACCCT
GTCAAAATTGCCCCGATTGGTAAAGAATCTAAAGAACATGGAAGGTCTCT
GCAAGGAGTGGCTTATCAGCATTCCCATTCTTTTCCAGACCAAAAACCAA
GTGCAAGTCCAATAGCTGTGTCCTCTTTAGGTGACTCCAGTTCTAATCCA
TCAGGCGTTGGAACTCTTTCCGGTCCTCAGTTTCTCTGGGGAAGTCCCAC
TACTAACTCCATGAGCAGCAATACTTCTGCCTGGCCAACTTCATCCACGG
GGGTCTCATTTACATCAAATGGACAGGGAAAAGGACACCTCTTTCCCAGT
CGTCCTAGCACTAGTATTGGTTCACATCATTACCATCACGTGGGATCTGC
TCCGACTGGCATGCCACTTGACAGGCACATCAGCTACTTACCTGAGTCGC
CAGAGATATCTTTTCTGAGCCCAGTGGCATATGGAGGTTTAAATCGCAAT
AACAGAAGCTATATGACAAACATTCCTCTTGCAGGATTGGGTATTGGCAT
TGCTCCACTTGGAAACATGTTTGAAAATGGTTCTCCTAGCTCCAGGATGA
TGTCAATTCCAAGGAATGGTCCTATATATTTTGGGAATGGTTCATATCAG
GGAACTGGACTAATACATGATGGATTGGCTGAAAGGGCAAGGGCAAGGCA
GATCGAGTATGCTGGGAACCAGTTAGAAAACAAGAAACAGTATCAGCTTG
AATTGGATAAGATTATGAGTGGGGAAGACCGTAGGACTACCTTAATGATA
AAAAATATCCCCAACAAGTAAGAACTGTTATCCTTATCCATCAATGTTAA
ATTATTATAGATTCTTATTTCTTCATTAAGATTCCTGCATCTTAAAACTT
TATATTTGTGTTTTACACTGTTTATTTAAGGTACACTTCAAAAATGTTGC
TGTTAGCTATTGATGAAAATCACGGTGGCACTTATGATTTTCTGTACTTG
CCAATTGATTTCAAGGTAACATCAATACATATGCAATTAATCTCTTTTTT
GTTTGACTGGACAAGACACATAACTGTTACGTTTTTCCTTCTTTGGCTAC
AGAATAAATGTAATGTTGGTTATGCCTTCATCAACATGATTTCACCTTCA
CATATAATCTCCTTCTATCAGGTTGAGCTTCTACTCTTTGCTTTATTGTA
GTAAGGTTAATTATCTTCAACACATTTTAACTTGCGAAAATTGCTCAAAG
AGACTTCAAGCTATATTATGTCCATCGTAATACTTGCACGGTATTTGTAT
AGTGCAATTTAATAATTTATACCACTACTCTTTCAGAAAATTTGAGGTTT
TAGTTTTTACTTGCCAAAGTAGGAAACCTAAATCTATAATTTTTATTTTC
CTTAAGGAAAGCTTTTTTACTTAACTTTTGCAGGCCTTTAATGGAAAGAA
ATGGGAAAAGTTTAATAGTGAAAAAGTTGCGTCATTAGCATATGCACGCA
TCCAGGGAAAGGTAGCCCTTGTTACTCATTTCCAGAATTCAAATCTAATG
AATGAAGACAAGCGATGCAGGCCTATACTTTTCCAATCCGAGGGCCAAAG
TTTTGGCGATAAGGTAACATGATTAAGCTGAATGCCTTTTAATTTTCTAC
TAGTTAACTTTGCACTTCGGGTTGCATATGCCAGTTTTATGTCATCCTCA
GTTATTTGTATTGGCTGCTCCATCTTCCATTTGCACAGCAATAGACATAT
TTTATTTTCTTGAGATAGTTGTATGTTGGATGTATGTTTAGGTATCCTAT
CGTGTCAGAATCCTACAAAAGGGCAGTGTTTTTAGATTTGTACTGTATAT
GGTTCCAGAGGGGCAGCCTTGGAAATTTGAATAATACTGCTGATTTGACC
AGGCTTCCTTCCACATCTGTAGCTTTATCATTAGACTCAGTACCATGTAC
CACAGTCAGTTCCCATCTCAATGTAGCTGATTAGGAAAAGATTGAATATA
CATACCTGGGAAAATAGATATGTTGACAATGATTTAGATGATTACAGGGG
TTGAATCAAATACAAACCAAATATAAATTGTGAACCAATGAAAAAACACC
AAGGTTTAGCACACTCAGAGGCTATAACTAGGTTCAACTTACCGAATATC
CTAATTTTATTTTCTGGCACTGATCCAATTGAGGTTCACTGTTCCTCAAT
TAGGGGATATATTAGGCATGGTTCAACATACGTAATTCAAGTATTAACAT
AGGTAACTGAAGTATTAAATGTGTTGAACTTTATTGGTTCTCATTTTAGT
TCTGATATGGTTGGTTTGTACTAGAACCAGACCTAATAACTGTCACTCTG
GATATCATGTTAAATATAAACAACTTTGATTGATAGGTCTATTAACGAGT
ATTCTTTTGAATCATCCAGGAACCATTTCCCTACAACAACTTGAACATAT
GTATTCGTCAACCGGATGGATCATATTCAGGTGATTCCTTGGAAAGTCCC
ACCAGTAGCCCTGAGGACAAAAACCCTTATCTGAGCTAAACATGCAACGA
ATGTAGCTAGCGTTCATAGGCGATATTTATGAGTGCTAACAATTTCATTG
TACATATCAAGAAAAAGAAAAAAGGACACTATGTTCATGCACTACGCAGT
ATCCGTTTTTTTAGGGATACTCCACAGTAATTAACAGGCGCAGGAGGCAT
CAAAGAGAACTGGCGAAGGAAGTATTTTCATTTAAGGCAACAATATCGTA
ATCAGCAAGGAAGAAGAATATTTTGGCTCTTCCAGCTGAAGCTTTTAACA
TGGTCTGCAGCTTGTGGATGATCTTCCCATAATTTCCTCAGATTTTCAAG
TACAACTGTTTTCCTCTAGTTGCTGATGGAATTTTCTATGTAAATATATG
AAACATGTTTATGTAAATTACTGTAAGTAAGGATGGGGATGTTTTTTAAA
GTGTATAGAAGAAAGGGAAACAGACCCCCAAGGAATGATCTTTTGTTATG
TACCAAACTAAACTAATGGACTTGTATAACTATGCACATATATTTATTGA