| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017387055.1, is a part of gene, LOC108214841. |
| The genetic_marker, MK005072 K2516, is located in gene, LOC108214841. |
| The mRNA, XM_017387056.1, is a part of gene, LOC108214841. |
| 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_017387056.1 | XM_017387056.1 | mRNA | DCARv2_Chr3:46260073..46269108 |
| XM_017387055.1 | XM_017387055.1 | mRNA | DCARv2_Chr3:46260581..46269108 |
ACTTACAGCCAGTTTACTCCCCCTGACTAAACAACCTACCCTATGCTCTC
CCGCTTAGTGCCTAAGCCCAGCACATTGCGCACGCTCAATCTCGCCCGAA
AATTAATCTCAACTCGATCATTTTCACTCACTACAGCTTCGCAAAAGCAG
GATAGCAACATGAAATACGTCGTCGTAACGGGCGGAGTAGTGAGTGGACT
CGGCAAGGGCGTTACTGCTAGTAGCATCGGCGTCGTTCTCAAAGCCTGTG
GCCTTCGTGTCACTTCTATCAAAATCGGTGCTGAATGCTTATTTTATTTT
TTATATGTGTTTGTTTTTGTAATTGTTTGTTTTATTGATCATGTGCTGAG
CATAATTACAACTGAGTTCTGTTGAGTTTTGTGTTTGGAATTCGGTTCGA
TAAAAGTTTGATATGGGCGAAAAGTCGAAATAGGTGTAGTGGATAGTGGA
GAGAGTTGGAATGTGAGAAGTTCGGGTTGAGTTGGACTCGATTAAAAATG
TTAATTAATGTGAATTGATATTATTATTAAGCTGGTTTGTAAAAAGCGTC
ATGAATCGAGTAATTTGAAGTAGAAGCTAGGTTGCACAAGGCAATATTTG
AGGAGCTGGAGCTCGAGCTCGAGCTTGGCTTCATTATTATTGATTTGAAT
TGGCATATATTATGGACCGAATTTGAATAGGTTATGGATAGTTTTGACTT
GTGTACACCATGGTTATAGCTGATGTGGAATGTGGTTTTTGTATAATTAA
TGTTGTTCTTGTAGAAATATATAATCTACAATTTCTTATGTGTGTATCAA
TGTATCCCTATGATTACAGATCCGTATTTGAACACAGACGCTGGTACAAT
GTCTCCGTTTGAGCATGGGGAGGTTTTCGTTCTTGATGATGGTGGAGAGG
TTGTCTTATACTCTTTTTAAATGCTATACATGCTCTATATATAATACAGA
AGTAGATTAGAATATCGCACTGTAATCTCGCGCTTCTTTTAGGAACGTTT
TTGAAAAAAGTTTTCAACATTTGAAGTATCAGATGATTTGTAAAATGTGT
ACATATTTACATAACTCTGCAGAATTGACAATGGTTTCTATAAGTGTAAA
TTGCGGAATCTAGGAGAAGGCCTCCAATAGTGAAAGTTTGGTAAAAAGAA
CTTTCTTACTAAAAAAAAATCAGCTGGAGAAATGATCCATGATAAACCTA
CTCTTGAGAGTGTTGAGACATTAATTTTTTTTTTCTTGATAATAATGTTT
TGAAAGCACCTAGGATTGGTAAGAGTCAGCTATATATATAAAAAGTTATA
TCCAGGTTCGGCCATAAGTTTTTTTTTATCATGGTCAATATTCGTATGAT
ATGTTTACCTGTATAGATTTTGTCAGGGACCTCCGATTCCTATGAGTTTT
TTTTAATGTTTTGTTGTTTTAATGCTTTCTATAGGGTTTAGTGCAAAAAT
AGAGTATAAAAGATAGATATGGCAGAGAACAGGTAGGGATAAGGGCAGAA
TTTAACATAGAAATAAAATTAGAACAGACTTGTAGAGACGATCAGGGAGA
CACGAAGCTTAGAGAGATAGAATGGGGTTAGAAACCCTAGAGAGAGACAG
AATCAGTTATAGAACATAATAGAAAAAGGGTCTGGGTCCCCGACAAACAA
TTGATGCAGCACACTACCAGCGGTACCATGTCTTCCGGCAGAAAAATTAC
TCGTTCTAGGGTTTTTACTTTTTACCTTCCCGCGGAAAAACCGGTGGTGG
CATCTTGTCAACAATTGTTTGATTTGGACCAACACCGATAGTAAAATACA
TTCAGGTCTGGTATTATAGACCACAACTGAAATGACTACTATGCCCTTAC
GAGCTACAGTTACTACTGCTTGTAACCACTATCACTTCAGATCTTGACAG
TTTTATACATTGTTTTTTTTCTCCAATAGGTTGATCTGGACTTGGGTAAC
TATGAACGTTTTTTGGATGTGAGACTGACAAGAGACAATAACATTACTAC
TGGAAAGATCTATCAGGTGCTGGAATCCTCTAGCTCATGAAACGTAGTTG
TGTGATTTCCTAAATCTTGAAAATGTTATTAATGTGTTTTGTTTCCTCGT
AGTCGGTCCTTGACAAGGAACGGAGAGGCGATTATCTTGGGAAAACTGTC
CAGGTGATGCTTCATTTGTACCTACTTTATCTTCCGTATTTCGAGCCTTT
CAAAGATGGTGCTACTCACTCTACTCTTTTAATGTAAGTGGATTTATAGG
TAGTCCCACATATTACGGATGCAATAAAGAATTGGATTGAGTCTGTGTCT
GTTATTCCTGTGGATGGAAAAGAGGGCCCAGCTGATGTTTGTGTCATAGA
ATTGGGAGGCACCGTAGGTATGGGCTCTTGAGTTGTCTCGTTGAAGTTTG
ATGCACCAAAATTTGAACTCAATCTTTACTCTTTTTACCGATCATTTATG
GTATATGACAATTATTACATATTATCAGGTGACATTGAATCAATGCCCTT
TATAGAAGCTTTGCGGCAACTATACTTCTCTCTGGGTAAGGTTTTGTTGC
TTTTTATTAGATGGGAACTTGCTTTCATGTACTTAGAAATGATTAGGGAA
CTAAAATAAAAGATATGAAGATTGAAGGGCTTTATCGCAGGGTTCAGGGC
CTTGAAATCAGGGTAGAGATCTTGAAACTTGTGCTCAATTTGACCAGCTC
ACCAGCATGCGGAGAATGATAAGAATTCAACAACTTCATTCTAGGGATCT
AGACTTCTAGGCCTTGAGCAAATGAGCAATGGATTCGAGCCATCACACTA
TTGTTCATGGCCTTGAAGGCGATATTAGGCACAAGTTTAATGGCTTACCC
TTATTTCAAGGACTTGAATAGGATGAAAGTTATAATATATTGGACTTTCT
CATTTAGTTTTAATTCTCCTTAAAACATTTTGCAGGGATCATAAAAGCAC
ATCTAAGTATATTACTATATATGCGGTATTACATTACTTTAAGGGACTTA
AGATATTTTTTTTGCCGGATATAAACTAGGTTTTACTGACCGTGGTTTGT
TTTACACTTCCTGCTGCGATCCTAAAGATATCTCTAACACAAATTAGTTC
TCTGACATATTTAGTTTAACTGGCGTAGCTAAGCATTTGCGAGAAAATCT
TATGAAAAATGTTGCGAGTGAAAATTATATTTCCCACATTCTCATCTCTC
TATGGTCATAGAGCTTCTCTATTTTTGTTAGGCTCTGTACTGCTCATGCG
TTTTGTAGATAGCCGCAGAACTAATGCCTATTCATCTTACATAGCTGTTT
TGGTTAACTAACAATTTTTTCTCACGCTTATGTTTGTTTTCCGTTATGTT
CAAATGTGAAACTGACTACTTGAATGCTACACTTTTTCTTCAGGACAAGA
TAATTTCTGCCTCATTCATGTGAGCTTAATACCTGTATTGGGTGTTGTGG
GAGAGCAAGTAATATTCTAAAGCATCATTTGTTAATTATGGCCTGAATTT
GATGTTGACTCACTTTTATATCCTAAGATAATGACATGATGATGTAAGTT
TTATTGCCTGTGTTGGCAGAAAACAAAACCTACACAACACAGTGTGCGGG
AACTAAGAGCACTTGGCTTGACCCCTCATTTTCTGGCATGTCGTTCTGCA
GAGGTGTGTTCTTTAACTATACACATTAACTTTTCCTAGGCATTTTTCCT
GCATACACCAATCTGGTCTCATAAACCTTGGTTAAATAAAACCACCCGCC
AAAACTGGAGGCAATTTTGATTTATAAAATTTAGCTGAGTATATATTAAT
AAACAATTTTATCTGATTTTAAATTGCACAAATTATTTGAAATGTACTGC
TCATTACCTGCTTTCTTTGCTTTCAAACTTAGATGAATCATTTTAGTTCA
AATTACAAACTTCTAAAATTACAAACTTCTTGCATTAGGTTTGATAAAAT
CAACATCTAGTGCATTTGTGAAATTTGTGAAATTTTGTGCTTTTTGTTTC
ATTATGTTAGGTAAAGTATCAACATTTTCTTGCATCACTGAATAGACTAT
GTCTCTGAAAACTGGTTTCTTTGTAATGATTAACATTTAATCTTATTGAC
CTAATGTTTAGTTTGTAGTTAACGTGCTGTCCCTGATATTATTCAGTGTC
CATTATGCATGTTTTTATAATGCAGCCATTACTGGAGGGCACAAAGCAAA
AACTTTCGCAATTTTGCCATGTTTCTGTAAGTTGCTACTCCTAGCTGTTC
TCTATAAATCTCTCTTATACACGCCTGAACTCCATTCTGTCTTTTAGGTC
TTGTTTAGGACCATGCAGTATTCTGAACTTTCTACCTTCTCAAGTAATTT
CTTAAGAATGATATGCCATGATCTTTAATCTTCACAGATAGGCAACATAC
TTAATATCCATGACGTTCCAAACATTTGGCACATCCCTCTCTTACTTCAG
GTGGGTTAGTGTGTGTCTGTGTGTGTGTGTGTGTACATGATTATTTTTCT
TCATCTGATTAGCTCTTGTAACATTTTTCTCGATTCTACACACTTTCTAA
TGTTGCACTTTTGTTGCAGAACCAGAATGCTCATGATGCCATTTTAAAGC
AGTTGGACCTAATTAAGTAAGTGTTGCTTGAATGTGGTAGCCTGGTACAT
GTTGGCTTATTATATACGAAATATTAGTAGATAGAACACTACCGGACTTA
CTATGAAAACTCTGTTCCAGTGTAGCTACTCCACCTAATTTACAGGAATG
GAATAACAGAGCTCAGAAATTTGATGACCTCAAAGATTCTGTTAGTATCA
TTCATTTGAATTAACATCCTACTGTTGTTTATGTTACTTATTTACTCAAT
ATATACTACACTTTACAGGTAAGGATCGCGATGGTTGGGAAATATGTTGG
CCTAACAGATTCCTATTTGTCTGTTGTGAAGGTACATATTTGAATTCCAA
ATTTGAGAACTAGATACATGTTCTCACACACACACACACACACACACACT
CAAAATACTCGTGAAGTATTGTTGTCTGGAATAATACCCTATAAATCTGT
CACAAATTAAAGTCTGGCAGGCATTTGACTTACCTAATTTGAGAAATCGT
GTTTGGCCAAGTGTATTTGAAAATCAACAGTTCAAGTTACTTTATAGAAC
ATATAATAAAGAAGTGGACGTGTTATATTCAGAACATTGTCCTTGCTTCT
TATTAGTAATTATCTCTGAGTATAGGGGAATAATAAGACACAATCATTAG
CTGTAACTTATATTCGTAACATAAATTTGTATTTAATTAGTTACCATTAC
ATTTGTGAAGTTTATCTTCTAAACTGTAGCCTGCAGGTATCAATTTCTGA
CAATATTTATATGGAATAATATCAGTAATTATTTGTTTAATGTGTATATG
CTATTCCGCACCTATGTATCTGCTGATGATAAGGACTAAGGATAATTCGA
TGAATATTAGTTGACAGTTTTGTTTCCTTTTTCTTGATGATCAGGCACTT
CTTCATGCCTGCATTTCTTGTTCGTTGAAGCCAGCAGTTGATTGGATTGC
TGCTTCTGACCTTGAAGATGATAGTGCCAAATTGGTATTGGGAGTCTCCA
TTAGTTGCATAAATATGATAACTTAAATGTATGTTCCTTCTATGTATGTC
TACGGGATTTTTGACTTGCGTATTATCCTCATGCAGACTCCAGAACTTCA
TGCTGCAGCATGGAAGACTCTAAAGGTAAACTTTTGGTTAGTGTATATTG
TTTATGTTGCCTTACAATTTTGTCCGGGGATATGGACAAGCAAGTATATC
AAAGGGATTTTGCAGAGTATAGACAACTCTCTACTGTAGTTGGTTCGATA
TTTATAAATTGTTGACTTAGACCTGATATAAGAGCTCCTATGTTGCTAGG
AGGAGGGTGCCAGATTTATATATTTTTTAATGATCTACACTGAAATTTCA
TCCGCATGTTTAGAGTGCAGCGTGTGTCTTGGTTCCTGGTGGATTTGGAG
ACCGCGGGGTAAAGGGAATGATATTGGCTGCTAATTATGCCAGAGTGAAT
AAAGTTCCATATTTAGGGATCTGCTTAGGCATGCAGATTTCTGTAATTGA
GTTTGCACGATCTGTAAGCTGGTTGTATAAATTATCTTTTTATTTCCCGT
GTCATATAAAGTACAGATATGCTATAAATACTTGCATTTTGTCATAAATA
ATAGGTCTTGGGTTTGAAAAGGGCAAACAGTTCGGAATTTGATGCGCAGA
CACCTGATCCAGTCATAATTTTTATGCCAGAGGTATTCGACAGATCATGG
TCATATCTGACATTTATGACCAATGCCTTGCACTTTTATTCGATAATCTC
AATACATGACTGGACATATAGGGTTCAAGAACACACATGGGAAGTACAAT
GAGACTTGGTGCTCGAAGAACGTTATTCCAGACCTCTGACTGCATCACCG
CAAAGCTGTATGTCACAAGAGTCAGTTAGTTACTAGTTACTACTCTAGAA
TATCTTGCATGGCCAAATAAATTAACTATCTGAGAATAAATTAATATCAG
AAATTTTGGTTTCATTGTGTAGATGACTAAAGTTAATGTATGATGGTCTG
GGAAGCATGTATGCAGCTTAGCTTAAATAACCTTGCTGTAGTAATATTCC
AGTATACATGTCCTGCAGGTATCACAATCAAAAGTTTGTGGACGAGCGAC
ATCGGCATAGATACGAGGTTAACTAATACCATTACTATTCATATTTGTTT
ACTTTATTGTATTATCTTTGCATTGATTTGACATGTACGAGATGCAGGTA
AATCCAGAGGTGGTTGGCATGTTAGAAGAAGCTGGCTTAAAATTTGTAGG
GAAGGATGAAAGTGGTCAGCGAATGGAGGTTTGTTAGTTAAAGACTTGCC
TTTTGACTAGATTTTTTACTGTGCCACCATGCATTCTTAAACTTCCAATA
ATCTGAAGTAGTTTCTTTTTCACTTGCTTGAAGAGGTACCCTAGTTCTGC
TCTTATTTCATTTCTGACTTGATCTTTTGAATTTGGAAATATTCTTTTAG
ATTCTGAATACGTATAACCCCAAATTCACATTTTTAGATTGTAGAGCTCC
CCGATCATCCATTCTATGTGGGAGTGCAATTTCATCCAGAGTTTAAGTCA
CGACCTGGAAAGCCTTCAGCTCCATTTCTAGGTACTCCGTAAGATTTATT
AATTTATCGATACCAGTGCTGAACTATGTTGATAAATATATGTCTATATA
CACTATATAGAAGTTTGTGATTGTCATTTAAAAGCTGGGATATATTGTGA
TGTGTTGCCTATACATATAGGGTTTGTTCACTCATAAACTGAAGTTGGGC
TACAAAATTAGTGGACTGTATTTTTAACTTATTAATCTTTTTTGATGAGT
CTACTTGTATTCTAAAATCGATCTATATTTGTATAATAAAAATCAAAATG
CTTGTTTGTAGGAGAATTCATTCCCATCTCTTTACACATCTCATTTTAGA
AATTTCACACCCTATCATATCTTTACTCTCATGTAATTCACCTTTGTTCT
CCCTCTCTAATCTCCATTATGTTCTCTTCCCAAATTTTCCCATTCTATCC
AACCGAACAGTACATTAGTAAGGTTTGCAGGATTGTAGCTTAACTTGCAT
GTATGTATCTATATATGAAAAGGATATATATGTGGCAAGGCGTTGCCACC
TGTGGTTATAAATCAATTGAAAAAAGTACATTCTTATAATTTTTTATGGC
AATCGAACCCTACATATGTGAAACACAAGAATTAAGCTGTTTCCGTTGTA
TAGTACTACAGTGAGCATGTTGTTTCCTGTATTCTGATCAAGTGAAATGA
TTTTATTTATTATCCTCCAATTCTTCCAATAATAATATTTGGTGATAGAA
TTGGACTGTAATATACATAAAGCACAATTTTAAGACTCGTGATTGTTGGG
TATATTTAATTTAATCTGTTTACATTTTTGCATATCCTGTTAAGTTTTTG
TTGGTGCTTATGTGAACAAGGACCTCGCATAACTCTTATTGATCAGCCTT
GTATGGTTTCCTTAACATGCAAATTGTTGTATAGGTCTTATACTGGCTGC
AACAGGACAGTTAGGGGCTTATCTCAGTGAACAACAGAATGGGAGTCTAT
AAGCAACTGCAAAAGTTCATTGCTCAATGTGTGACAAGGTACTTTAGTTT
GTTAGGAGAGCCTAAGTTCCAAGGTCCTTCGCCTGCTTAAAATACTGTAG
TCAGTTCCTCCTTGTCCTGCTGTTCGTCTATGTTGTTTGGACCTTGCAAG
GATAGGCGCTACAAAGTTGGATCCTTCTTTCTTATTGATATTTCTTGGTT
TGACAAGGTCTTAAGCTCTCATTGTCACTTGCAGTGTAACATGGTCATCC
TTAAAGATAAATCCAAACAAATGTACTTAATTTGCATCATCAATCATGTA
TACTTTTATTTAGCCAGTATTTTTGTCCCTACTTTTGTTTTTATTTTAAT
TCTGAATAATTCTTACCTTTTGTGGTAGTATTGCCAATGAAAAGTATTAG
ATCAAGGGTCACTAATTTTGGAACTTAATCTCCCTCTAACTTCCCATAGG
ACTTTGAGAGAGTTAATGGACTGACATGATTCAAGAAACTCTCAAGTTTT
CTTTGTAAATTGTACCATGGAGAACTTTACCATCAAAAGCTTCAAGAGAT
CTTGCAAACTTTGACAGATTGTGTAGTGTATATTCTTCTTCTTTCCATCG
TTGTAAATTGCAATAGTTCTTTCAGATTTGAGGAATTTGACACAACGAAA
ATTCCATCCACTTGTGTTATGTCTGAGGGATTATGAACCTTGATCTCATA
TTTCGTCTATCAGATGACAGAGTTTCTGTAACTTATGTTCATTATATTTG
CTAGAAACGCTAGGGGTACTTGTGTGAAGTTCTACATCATGTTGTTATAC
AGATGGTGGCTGGTAATGATAATTTGTTGACCCAGTGAGCTGTATTTGGG
TAATGAATAATGATTAGTTAGTTGATTTGTTCAAA