| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017386223.1, is a part of gene, LOC108214290. |
| The genetic_marker, MK004085 K1529, is located in gene, LOC108214290. |
| 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_017386223.1 | XM_017386223.1 | mRNA | DCARv2_Chr3:11297860..11306648 |
TTCACACAGTGGTCGGTGCTTTGGCTCTATCATATTGCCCGCACCGCACA
GCAACTGCGGCCATCTTCTCTCTGTTCTTCACCGATTTGGGTATCCATCT
TCTCATCGATTTTGTGCAATTCTCTACTTTCACACCCTCCAAACCCTCTT
TTTTTCTTCTTGCAGGAAGCAGATATAAGTGTAGCTGATCACAAATGAAC
TGGCTTTGTGTCTGAACAAACATGGAGAGATCTGATTCTAATGAATTAAA
TCACTTTTCTTCAAGTTTTACTTCAGGTTAGCTGCTTCTTTTGACTTGGG
TTTTTACTGTTTGCTTATAAATTTATCTGTGTGTTTAATTTTTGTGTTTT
TTTAATCTTTGAGAGCTTGTTTTATTAAGTTGAATCTTTTTGTAATTGAA
TTGATGGGGTGTGTTGTGTTTTCAAGTTATATTTGTTGTTTGATTGCGGG
AATTTGCTCGGTTTTGTTTACGGTAAAGATGGTGCTAAGGGATATGAGTT
GTGCTTGTATAATGATATATGATTGTCTGATTTGTGTGAATGTTATTGTT
TTGGGCACAGCTTGGAAAAATAGTTTTCCGTAACTTTCTGTTTTATTACT
TTTAGTGAACCACGCGGTCTAAAGAAGCTGTTGTTTCGTGGAGAGGTTTA
ATTCTTGTTATTTTTATTTCTAATTTATTTAAATGACAGTGTCACTAATT
GAAGTCAGTGTGGGGTATTTATTTAGTGAACTTCAATTGTATCATATTCT
TGATTATGAAGTTGTTACAATTTTTTGTTTTGTTTTGTGAACCATAAAAG
GATTGATCTGTTTCGTCTGGCATGAATCCATCTATTTACTTTTACTATCA
TGTGCCCTTCCACGTAAACACCCTGCCAGTTTGATGAACTATATTTTTTC
TTTAGCCCAGCAGCTTTTTAGACAAGATCATTAGTGTTTATACGTTTTCA
TGAAAAACTAAGTTGAATTTCAAATGCAGATGCTGCACTATTTGATGCAT
CACAATATGCATTTTTTGGACAAGATGGAGCGCAAGGCACTGTGCTGAGA
GGACTGGAAGATGAGGCGAATGATGCATCTGTACTTGGTTTTGGCGATGA
TGAATATCATTTGTTTGATAAGGAGCAGGTATTTATGGTTAAGTAGTATT
ACTTGCTACTATTAGATGCAGTATCAAGTTTGGGTAGAAATTATTAATTC
AACTCTCTCTCTCTCTCTCTCTCTATATATATATATATATATATATATGT
ATGTATGTATGTATGTATGTATGTATGTATGTATGTGTTTGTGTGTGTGT
GTGTGTGTGTCTTCTCTTGCTTCCATCTTTAAGTCAGTAACATAGGTCTC
TTTATATAGTTCAGTAGTCAATTTTTAGCTTTTAATTGATAAATGTTTAT
ATTGGTGTCTAAAATTTTGGATGTCTTACTGGCTGATAAAGGTGTATTAT
AAGTAATATTTCTTGAACTGTCTTTGCGAAGCATAATGAAATACACACAC
ACACACACACATGTAAGCGGAGGTGATTGTTGGGGTATTAAACACATCCC
TGAAATATGGTTGTCATTTGTTTTCGAGCCGTTTTGGGATTGCACGGAAA
CTACATGAAAGATTTATGGCTCATGTGCCATCTCTTAACATCTTTCTCTG
CTCACACACACACACAAACACTACATAGAGCTCGTAACCTGTGTTTTTTA
CACAAGTTCCTTTAGATTTTTAATTCTTACTTTCCTGAATCGTCTGATGG
TTACCAAAATATTGTGACTTGTTGCCTATTGGTAAGAAAGTGTTTACAAC
TTCGCAATCAGCATGAGTGCTTGTAAGGTAATTTGGGTTCATTAATTATT
GTTCTCCTAGTGTGGCCATATTCTGGTATATTTCGTTTAAAAGACATCCA
GTCATATAGCTCAGAAGACATCTGGATAAGGAGGATTTTTTCTCTTTGCA
CTAATTTTTTATAGGTTTCATCTTATTGTTTACCCTATGTTACTAGATTT
TTGACCTTTTTCCAAAATTATATGGAAGATGTAATAGTTACCTGATCAAT
CTTTCTCATATGCCACTTTTTCCTTGCAAACATATGTATATTGGGTTTTC
ATTGGCTATGATTCTCTATAATTCGCTTGAAGCTGTCCAATCACTTACCT
TCTTACTTCTGCTTTTCCCCGTTTTAAATTTGGCCAGGAATCAGGTATAG
GATCTCTCTCTGATGTGGATGACCTGGCGACAATATTTTCTAAGGTCAGT
TTCACTATCTCCTGTGAATTTTGAGGTTTCACTCTTTGAGCTTTGAGACT
ATTCTGTAAATTTTATTAATAAGTAGTATTATTAGAAAATCACATTAACG
CGTGTTGTCTCTTTTTCTGTCTTCTTGTATTGTCTCTTTACTGTGACATG
GTCTGCTGTTTCCACTTAATTATACATTGATAGCTCCATAGCAACTATTT
ACTTGCTCAACTGATATAGATTTGTTGACCCAATAAATGTATGGATCTAT
GAAAAACGAATTCTAGTTTTACATAATATAGTTGTGAGATTACTGAATTC
CTGTTAGTTGAAGGGAGTTGTTTCTTTAGGAAATCAATTTTATCTGATAA
TTATGTGTTTTCCTTGCTAAATTTTTAACATGCATTTACCTTTGAGTGTC
GTATAAGTATATCTTTAAGATCAATTGCGATGTTCCTTTAATTATCCCTG
TAATATGAGAGTTCAACTGATCACTGTTTTGTAGTTTTTTCTTTGGCATC
TACATCTTGCTCTAGCTCTGTGATGGGTGCAAATGTGAACATAGGAGGAT
TATTGTATACTCCCTAGGATATATCCCACCCTCCATCCTACAATACTAGC
CTCTTTTTGAATTATCGCATTTATTAATAAAAAATTGATGATAAAGTTCC
AAGATTTCCCATCGTAATTGCAATTTAATCAGAATATAAAACTACTTAAG
ACTCTTGACCGCTCATTAATTACTATGCAATTTTCAAAAAGTATGACCTG
GAAATAATGTCCCCATATCTTAGACAGAGAAATAGATATGTATTACGGCA
ATGTTTTTTGCTTCAAAAGAGACTAGTATTGTGAGATGCTGGGAATATGT
TATAAATCAGATTATATTTATCTGGTCTAGAGAGAAATATTGTTTATATT
TGTATAGTATGAAAAGTTTGAATGGCATGTTATGAATGTGATGTCCTCAC
GAAAGGACTGAAACCAATACAAATTCAAGTTCATCATTCATTAAACTTTA
GAAGTGTTAGTGTAGTCAAGTTTTATAAAAAGTTCAGAGGAAAAAAGAAT
CATAGTATCAAAAAGGGGGAGAGAATAGATCTGGGATGAGCACAAGTGCA
AACCTGGAAATCTGTGTGGTGGCTGCAGGCTGCTGGAACTAAGGGTAACC
CTGAACTTGTCATACATTTTGCAAGATTATAGTTGGGTGACCTCACTTTC
TAAATTTTTTTCAAACCAGATATCGAATATCTTGAAATTGCAATGTAGGC
CATACTTCCAGGAAAAACAATCTTCCCTCAACTTTCCAGAATTTTTAGTC
CAGTCTTAAAGTTTCAAAATAATTCATAAAAGCCCGTGAACTCCAGATTC
TTGACAGATCAACCCCTGTGGCCCTGAATTTGACATTTCAATCTTTGAAC
TTTTAAATCTGACAATTGTTTCCTTTTAGTTGCTGAATTTGACAAATCAG
CTCCTATCAACTTCATCCTTCAATTCCAGCTGTTCCATATATAACTTTTG
CTACGTCAAGTAAAATCTGAGAATGTGATTTGCTACTTTATAAAGTTTAT
TCTTGTCGTCTTCGAAGCATGTTATGTGAATATGAGTTTCTGTTGCATGA
GTTGGATGAAGAATACTATGAATTTGAAAAGTTGGGAGAGATGGAATTAA
GAAAAGGAAAGACGTGAAATGGAGAGAGAAGAGGTCTTATGACATTATTA
TTTTTTGATTTCTTCTTTTGTGAGAATGATTCAAGGCTCTTGATTGTGTT
CCTGATGCTCTTGTGAAATCATTAAACTTTCAGATTGAATGTGTTCTCCA
TATTATTAAGATTTCTTGTGTTGACTATTCAATTACAGTTGCAAAATGTT
TGGCGGTTACTAATGGTTTTGGACATTGCACACTACTTCCTTGTAATTTT
GATTTTCCTATGGTTATCGCTTATTTGTTGCTTGGGTAGTGTTGGATATA
TGATTCAAAGGTACAACATTGTGAGGTTGACAATATCTTAGGTTTTAACA
ACCGAGGAGAAATAATTAGTTTGTTTTGCCAAACCGTATTGGTAGACAAG
TAAATCAGCTAGAGTTACAAAGAGAGTTAATAGAGGAGGTTAAACAAGTT
AAAAATATGAAGATCGCTGTTAAAAATTAAGGCGTAGAAAACATTCAAGG
AATATGAATTGGTTGATGCTATTGTTGGTGGTGATCATATGTGGTTTATT
TCTCAAAGAATCTTTTGAGTCTCCTTTAAGTGCAAGTCAATTCTCAAAGT
TCTTCGCACATGAGCTCTTTACGAAGAACCGCCAAAGGAATTTATTGGTT
CCATTTCACTTTTGCAGGTTTTTTTTCTTCTTACAAACCCCGTGATCGAG
TTTTTTAGACAAGGGGAAACTGATTGCGGACAGAAGTCAACAGAAAGGAA
AACGATTATATATTCTATTAGATTAGTTTAAATGAATCTTTTTTCGGAGA
CCGGACATATATTTTTAACTGTTTGTATCTATATGTTGTGTACATAGGAC
TCGGAGTTTATTTACTATATATATTATATATGATAAGACCAATATTTTGG
GTTAGTCCATCTGGTTATGTTTTTGGGTTTCTATTCGCTTTATATGTCTG
CCAGATACTATTGAGTATTTAATTGATTCTCCTCTTTGTTTATGGGTTTT
GGTCAATAGTGTTTTCCTTCCGTGGTTGAGAAACATTTTGTTTATGGGAT
GCGATCCATAGTTTTCTTCCTTCTGCCATAGGGTAACCTCTGGGGTAGTG
GATTTGCTACGGTCTGTCCACCCAAGTTGATCAATTTATTTGTCCAGTTC
GTGCATCAGCTTAACAACCCATCCTGCATTACTATTCGCAAGTCCCTTTT
CCTCAAAGTTATGAACTTATTTTTATGGTCCAACTCTTATAATTCCTTTA
ACAAGATTTCTTTTGTACAGATAAACAAAGTTGTCACTGGACCTAGACAT
CCTGGAGTTATCGGTGATCGCGGATCTGGTTCTTTTTCAAGGGAAAGTTA
GTAAACGTTTTGCTCTTGCTTTCTCCGTTTAAGATCTTTTATATTGCTTT
TATACTTAGAATGTTTAATTTTACTTCCAGATTTGGACATTATATATTAG
CAATGCAACTAATCTGGTGACCCTTAAATATTTTGTAATGTCATGTAACT
GTGCTTGTCCTTACTACTAGAAAAGCAGCTTCTTTATTGTTAACAAGCAT
GGAAATGACAAATTTGCTTCTCCAAAATGCCTTATTAGTTTCTGGCTTGG
TCACCAATGACACCAAATCATCAGTTGGCAATAAATTGAGAAATCACTGA
AACTGATGACCTGGTGTAATGAATAAATATGAGACTACATTTAATTGTAG
CTTTCCCCTTCAATACTCTTGGGTTTGGTTTCTCGTTAGACTCATTCCAC
ACTTACGCCGTGAAATTTCCGCAGCTTGTCTAACTTTTATTTTGGTCAAA
TAACTGATATTAGTAAATTGTCAATCTGTATGTGTAAAATGCTTGTTTGG
TAAGGGAAAATGTACTTACCTTAAATTGCGAACAAAGGTTCTTTGTAGTA
TGGTTATCGTGGTTTTTGCATGATTTGTTTTACAGATCATCAGGTAGTTA
AGAAATCTAAGATTGGATATTACAATATAGTAGAGCCACCATCTGACTAA
CTTTTAATTAAGTTACATAACTGATACTAGCCAATAGTCAATTTGTATGT
CTAAAATGCCTGCTCGATAAGGGCAAAGGTACCTCCTTGAATGGCGAACA
AAGGTTCTTTGTAGTATGGTTACTGTTCTTTTGCATAATTTGTTTTACTT
TATGGTAGAGACTTGAAAATTGCTTCGTGACCTAGCCAAATTCTGGCTAA
AATACTTGTAAATTGGGTTATTTACTGCATTTGAGTTCTGTCTCATCATT
TTGGATAATTTGTTTAGACATCATTCATTTTACATATACTGATATACATG
CTCCTGATTTCTAAGCAGTTTACCTTTTTCTTTTTATCCCCATTATTTAA
ATTGAAAAACTGAGTAGCAAAACTTGTTTGCAGGTTCCTCTGCTGCAGAA
TGGTCACAGGAATTGGATTTCCCTGACTGGTTAGATCAGCATATATCTGA
CACAGAGAGCTTCCAGGAAAGCAAAAGATGGTCTTCCCAACCACATCTCT
CTTCTGTCCTTGTTCCGGAGTCAAAACCTATATACAGGACAGCTTCATAC
CCGCTGCAGCAACATCAGCAACAATATCCTATTGAAACTAATTTAGAGTC
AGAATCAGCTTTCAGTTCATACCCTCCTCCAGGTGGCATATCTCAATTGT
CTTCACCTCACCACCATCCGCAACACCTGAAATTGTCATCTCTGGGTAGT
GGGCCTCAGTTACCCTTCTCTACGCCACACCTCTCTCCCTTGTCTAACTC
CAGTATTCATATGACTGGTGTGCCTCATGGGTACCGTTATAGTGGAAATA
TCCCTCATTTACTCTCACCTGATATTTCTCTTGGTAGTGGGTCACAAAAT
TACTGGAACAACCGTGCAGGGCTACTTCTTGGGGATCAGTCCAGTGTCAT
GAATAACATTTTGCAACAGCAATTTCCGCATCAAAGTAATTTGGTTTCCC
CGCATTTAATGTCACAGCAGCAGCAGCAACAGCACCATAGGCTCCATCTT
CCAATTCAACCATCTTTATCACGTTATTCATCTCTGCAATCCCAGTTCTA
TAATGCCCTTCCTTCTCCACCATCACGTCTGAGAAAACATAAATCAGCTG
ATATGAGGGATCAACGACCTAAAGTTTCACAAAAAGGTAAACATGCGTGG
TTATCTCAACAAAGTTCTGATGCCAGCCAGCAAAGTGATTACAATCGGCC
ACAATTTAGATCCAAATATATGACTGCTGATGAAATAGAAGGTATTCTTA
AAATACAGCATGCCGCAACACAGAGCAGTGATCCTTATATAGATGACTAC
TACCACCAAGCTCGTCTTGAAAAAAAATCTACTGAAACAAGGTCAAAACT
AAAGTTCTGCCCAGCTCGTTTAAAGGAGCCCTCTTCTCGATCACGTAATA
GTTCAGACTCCCAGCCTCATCTCCAGGTTGATTCTCATGGAAGGGTTTCA
TTCTCTTCTATTCGTAGGCCTCGTCCTCTCCTTGAAGTCGACCCTCCTTC
CTCTGCTTCTGGCGAGGGTAGTGCTGAACAGAAGATGTCGGAGAGGTCTT
TGGAACAGGAGCCCATGCTGGCTGCGAGAATAACGATTGAGGATGGCCTT
CGAGTCCTATTTGATGTAGAGGACATTGATAGGTTTCTACAATATAATCA
GCCCCAAGATGGTGGGACTCAACTGAGGCGGAGGCGCCAGATCCTGTTGG
AAGGCTTAGCAGCATCAGTTCAGCTTGCTGACCCACTTGGGAGAAGTGGA
ACATCAGCTGGGCTAAATCCCAAGAATGACAGTGTGTTCTTATGGCTCGT
TTTTCTTCCAAAAGGCAGAAAGCTTATTTCAAAATACCTTCAGCTTCTTT
TTCCTGGTGGTGAGCTGGCCCGAATAGTTTGCATGACCATCTTTCGTCAC
TTAAGGTTCTTATTTGGCGGCCTTCCTTCTGATCCAGAAGCAGTCGAAAC
TGTCTCTAGTCTTGCAAAGATGGTTACCAAATGTGTTAGTGGCATGGACC
TTAATTCTCTGAGTGCATGTATTGCTGCTGTGGTTTGTTCATCAGAGCAG
CCACCCCTTCGTCCACTTGGCAGTTCTGCTGGAGATGGAGCATCTGTTAT
GTTGATATGTGTCTTAGAGAGGGCAACACAGCTGTTAAACAATCCGCAGT
CCTCTAGCAACCGTGTTCCGCCGAATCCTGTCCTGTGGCAGGCTTCATTT
GATGCCTTTTTCGGTCTTCTTACTAAGTATTGCCTGGGAAAATATGACAG
GATAATGCAGTCCATATGTGCACAAAACCCCCAACCTAGCCCAGATGTCA
TTAATGCAGAGGCAGCAAGAGCTATAAGCAGAGAAATGCCTGTAGAAGTT
CTACGTGCTAGTCTTCCCCACACAAATGATCGGCAGAGGAAGTTACTACT
GGATTTTGCTAAGCGCTCCACACCAGTAAGTGGAATCAGTGGTCATAGTG
GGAGCAGCGGTCTCGTTACTCCAGAATTTGTACGGGGTTAGCTATTCTGG
CAAACTGATATGTGGCGATTGCAATCTTACAGAAGGACTTCTCCGTATGT
TCATAGCTTCTACCATGGATCGCTACAACAGTCTCTCCCTTGGATATCAA
ATGTTCTGCATGTATATATATCATGCCATCTCTCTCTATCTCTCTCAGTA
ACTTTTTAGGTGCTTTACCTGATGGACTTAACTGCAGTGCTGCTTAACTT
AGTAGTTTATGTTAAAAATTGTGTAAGTGGGATTAGTAACTTTCAAATGT
TACCGTATAGAAGGTTTTTACTCTGTATTGTAGCTCTGAACGGAAGCTAT
AGTACAGGGGTCAAATATTCCGGAAAATGATGGTTGAATAAGCTGTCACT
TTTCTAATATTGTTATTTCTTTTTTAGTTTGATTACTA