| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017374553.1, is a part of gene, LOC108204890. |
| The genetic_marker, MK006173 K3617, is located in gene, LOC108204890. |
| The mRNA, XM_017374552.1, is a part of gene, LOC108204890. |
| The mRNA, XM_017374551.1, is a part of gene, LOC108204890. |
| 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_017374551.1 | XM_017374551.1 | mRNA | DCARv2_Chr1:18221556..18229751 |
| XM_017374552.1 | XM_017374552.1 | mRNA | DCARv2_Chr1:18221556..18229750 |
| XM_017374553.1 | XM_017374553.1 | mRNA | DCARv2_Chr1:18221806..18229753 |
CAACCGAGCCCACACTCGTGATTCCATCCGAGTCCAGTCCACCCAATCCA
ACGGCCACGATTCAAAGGAGGCGTAAAAACCAATGACAAAATTCGCATCC
AACCAGATCCATTTCAATCCCCTCCCCCTCTCTCTACAATTCACCCCGCC
CTAGAGAGAGAAATCCACCCTACCGGAAAATGATGTCATCAAACCCCGCC
GCCGGAGAACTAACTCCACAGCAGCAGCAACAACAGCAACAGTGGCTGGC
GATGCAGCAACAGTACCACCAACAATGGCTGGCGATGCAGCAGCATCAAC
AGTTGATGTACCAGCAGCAAGCGCCTCAGTTCATGCCTTATTATCAACAA
CAACAAGCGGCTCAGATTCAATCGTCGAGTGAGGAAAACAAGACTCTCTG
GATCGGCGACTTGCAGACGTGGATGGACGAGCACTATCTCCACTCCTGCT
TCGCTCCCTCCGGCGAGGTCTTTTTCGCTATTTTATTCTTTATCCAGATT
ATTATTTATGTGCCATTACTTTAATTTTAAGAAGAGGTTGGAATTTAGCT
AGGTTTCGGAATAAGAATTACTTAGAATTGACTGCATAAATTAGAATTAC
TGGAAATTGACCGGATAAGTTTGACTATGTCTCGGATTGTATAAGCTTAT
GCTAATTAGAATTAGTGTCTGATATATTGTACATGATTACATGTTTATTA
TGTAATTTGTATGTTGGTTTCAAGTCATTTTCGACTTTTAAGTTAAAAAG
TGTCTGTTTTAGAGTGTTTCTGTAACAAGTAAAGAGGTGACCTAAAGTTA
AATATAAGTCAGAATTTGACTTAAAAGCGGGGTATTAGTAGGAAATACTT
TTTTGAACAACTTATTTTATCTTAATGATTTTCCATGATAAAAGTTCATA
TCATCATTAATATGTATAAACAATCAAATTTATTTTATTATCACATTTAT
AATAACTCATAAGAGCAAGTCCAACAATGTCCTAGTTTAAGCCTTAAATA
TAATATAAAAATGACGTCTTAGTGATTTACGACATATTTAACTAACTTCA
AGTCCAACAATGTCCTAGTTTAAGCCTTAAATATAATATAAAAATGACGT
CTTAGTGATTTAGGACATATTTAACTAACTTCAACTCCAACAATGTGCCT
TATCCTTAATATATTTTTAATATTTTATTATTAAAGATTTTCTTTCATCA
TCGAAGTACAATATAAAGTACAATATGAAGTATTTCTTGGACTTGCTCTA
AGTTACTCATAATACAAAATTTCCCAAACAAACAAATTTTACCTTGCACT
TATCACTATAAGCCACTTCAAGTCATAAGTTATTATTTAAAGTTCACCTA
AACAGGCTCATATAATTCTGCCTCTAATTAAATGAGTTATGTATGTGTTT
GAAAAATTCAGCCACCTAAATTTGAGCAAGTATATTATTTAACAGATCGA
GTAGTGTTAAATTAAACTATGGTGAAAATTATGTATATATATCGTTCTGC
TTGGTGCTCTATATCAAGAATAATGTCCCTAATTAACTTTTTGTTTGTTC
ATAAATGAATTGGAGTATTCATCTCATACCTTCCATGTGTTAATATGTTA
AGGACTTAAGGTCATTCTTTTCTCCATTTTTTTCTCATCATACATACTGA
TTGCTGATAGAGATTGCATGCGAGGAATGTTTTCAGATCGGTTCGGGTTT
CGTAAGATCCAAATCCGATCCGTTATGTCTCGGTTCGGTTTGGGTCCAGA
TATTAAAAATGAATGTCCAAATTTGATTCGTCGGGTTTTTTTGGATTTCG
GTTTGGGTGTCATTCAGATCTTATAACAGTAATTAATTAAAAATAAATAA
ATCTATATTGTTGTAACAATATGACATGTAACACATTTTTTTAATGTTAA
GAATACAAAAGTAGTAGCTAACAAAGGATGGTGCATTATTAAAGTTTTGG
CTTTCCTAAATGTAGGTCAACGATGCAACTCACTCCTGGAGTGTAAGTTT
GTTTAACTGAAAAAATAGTACTATATATATTTATTTATGTAGTAAAATAT
TAGCGTCAAATATATTAAATTTAATTATCAACAATTATCCAACTTATCGG
TTATAACTTATAACCATTAGATTTAATTATTTGAAATATATAAGTCATGT
ATTATTGTTATAAAACTATGTAAGATATTAATTTTTTTAATAATTTATGA
TATATATGTATATGCTATCGGATTTTTTTGGACTTTGGGTTTGGATCGTG
TTTGGGATGAATTTTGGGGATTCGGGTCGGGTATCGGTTCGATATGCTTA
AGATCCAAATCCAGATACATACTCTTTCGGATCTGAAAAAAATCCGGATC
CAAATCCAAATAATCGGGTTCGGAAATATTCAAACGGATCGGAACAGATC
GGGTGTCTGTCGGGTTGAAATTGCCATCCCTATTCAGTTACATGGGTGTG
GGGGTTAATTTGATGAATAGTACATTTTAACATTATGTCACTCATATGTC
GATTATATGTTTTCACCTGATAGCATAGTAACCTTTCTATATTAAGGATA
TGTTGTTTGCAATACCTGAAATTAGCAGCCTACTGTTTGCCTTATAAGAC
TTTAATATATGTAAACTGAATTATGGTGCCTTCACAAAAGCAGGCTGTAT
CCGTAAAGCTCATTCGCAATAAGCAGACTGGTCAGTCGGAGAGATTTGGA
TTCATTGAGTTCCTTTCTCATGCAGCAGCAGAGAAGATCTTACAAAGCTA
TAATGGCACTGTAATGCCTAATACGGATCAGATGTTTCGGCTGAACTGGG
CAACCTTTAGCACGGGCGAAAGGCGTCAAGATGCTGGTTCTGATCAATCT
ATATTTGTAGGTGATTTGGCATCAGATGTTACTGATAGTATATTGCTCGA
AACATTTTCCAGCAGATACTCCACGGTCAGGGGTGCAAAAGTTGTGGTTG
ATACAAACACTGGTCGATCAAAAGGTTATGGTTTTGTCAGGTTCGGTGAT
GAAAATGAGAGATTGAGGGCCATGACTGAAATGAATGGACAGTATTGCTC
TAGCAGGCCAATGCGCATAGGTGTTGCAACCCCCAAAAAGCCATCAACAA
CACAGCAACAGTACTCTTCACAAGGTGAATAATAGTATCTCTGTCCTATA
TTGTGTTTAAGTTTTTCGTAAAATTTAGTCGTAGTAGGTCATGCTCGCGT
AATTCTGTCTTTTATAGTTTATGCTCTGGAGTCTGCTACTTTTTCTATTG
TATCCGTGTCTCTGTTTCTTGAAGTTGGAGTTCATTATTTCATAATTTTT
AGTTCTATAAACACATGGCATACTAACATCAGTGTTGGACATTTTTGATA
CCTGGATCTTATATAATGTTTATGTTATTTCCTTTTTGAAAATTTAAATG
AAAACAGAAGTAGCTACATTCTTTACTTCTGATTTACTAGTGTTGAATGT
CCTTTCTCATTCTGCACAGGTTCTGCGTATCATGTTTATTGTTTAGTGGC
TTAACTTTGCTTCATTGTTTACTAATATTAAGCCACTTGAATATAGTTCC
CCTGTCCTTTATATCCTTTGTACTAGAGTCTTCTGGTTTTAAGTGTATAT
GTTTCATACTTTTTAGCAAGTAGTTTTTTGAATCAATTCTAAATCGCCTA
AGAGGTGACATCAACGTTGGTCTTTTGTTGCAAGTTGGACAGTTCTGATA
CTTATGTATTTCAAATTATAATATAGCGCATTTTAAAAAGAAAAGAAAAA
CAGACCTAGCCACTTTCCTTACTTGCGATGGATAACTGGTGCTGAACATT
CTATTTCCATCTGAACCAAGAAGGTCCTGCCAATTTTGTTTTTTTGTTTT
GGATTCATTTTACGTCTTTAGTGGTTTACATTTTTAAATGAGTGGAGAGG
AAGAGAAAAGGATACGAACGCGTGACCTTGTCTTCAATAAGGTCATATGC
CTTAACCTATAAGAATCAGCATTGAGGCTCTCCTGTATCAAATCTCTAGG
AAATATTTTACCTGCATTGATTAGCTGTGAGGATTACATGAATTATTATA
TATTATTATATTATTATTATTATTATTATTATTATTATTATTGTCATTAT
TATATATATATATATATATATATTTTTTTTTTTTTTTTGGGGAAGGGGAG
GGGCAGCTAGGATATTTAAAGAAGTCTCTACTAAAGAAATCATCCCTCAA
TTTCAAGAAATGAAAACTAAAAGAATTCCATTAGTAACTTATTTTTGAGG
AATATTTTTGTGCATGTCTGTAACCTTTTTGGCTTGTGTTCCCTTCTACA
AACTTTCTGGATTTTCGGAGATCAAACCTTTAACTGATAAAAGTTAGCAT
CGAGACTGTCCAATTTTAAATCTGTAGGCAATATTTTTCATATTGATTCT
AATTATTTGTTAGCTGTTATTTTGGCCGGTGGTGCTGCTGCAAATGCTGG
TCTCACTCAAGGCTCACAGTCTGATGGTGATACATCCAACACAACAGTGA
GTCTTGCTTTTCCTTGTCGAGGTTTTTTTTTTTCCTGCTTTATTAACCCT
GTTTATTCTCTTAGGTATTTGTGGGAGGGCTTGATTCTGATGTAGGTGAT
GAAGAGCTTAGGCATACCTTTTCCCAATTTGGTGAGGTCATTTCAGTAAA
AATACCAATTGGGAAAGGATGTGGTTTTGTACAATTTGCTGACAGGTATT
TCCTCTACATTTTGAGACCTTGTATGTATTATTACTGAGAGGTAATTGCA
TATCGCACCCCCTAACTATCATTCAAAAACGATATTGTACCCATACTTTG
AGAAACTCAACTCGCAACCCTTATCTTTACATTTCAAGAACGATACGCAC
CCCCCTCCGTTAAATTCCATTAAAATACTCCCTCCGTCTCAATTTACATG
TCCTTTTTGTTTTTCGAGGAGTTAAATTGACTAATTTTTGAAAAACTATT
AGAAAATATTTATTTATTATTTTAGAAAATAGAAAGTTACATATTAAAAT
GGACTAGATTTACTTTTTGATGATATTTTTTTGAAATTTTTGTTTAATTA
AGCTATCCCCAAGTCAAAATGATTTTACAAAGTCAAAAATGTTTGATATG
TAAAATCATTTGATATCATCAAGTCAAAATGATTTTAAAAAGTCAAAAGA
TTTAAAATCATCAAAAAGTAAACAAAATTTGATATGTAAAATCATTTGAT
ATGTAAAATCATTTTGACTTGGGGATAGCTTAATTAAACAAAAATTTTAG
AAAAAATATCATCAAAAAGTAAATCTAGTCTATTTTAATATGTAACTTTC
TATTTCCTAAAATAATAAATAAATATTTTCAAATAATTGGTCAAACATAA
GTCAATTTGACCTCTCGAAAAGCAAAAGGGACATGTAAATGGAGGCAGGG
GGAGTATTTTAACGGAAGTTAATGGAATTTAACGGAGGGGGGTGCGTATT
GTTCTTGAAACGTAAAGATAGGGGGTGAGAGTTGAGTTTCTCAAAGTATG
GGTACAATATCGTTTTTGAACGATAGTTAAGGGGTGCGATATGCAATTAC
CTCTTATTACTGATGATTTGCATTAATTTTGTCTTATAAATTATATATGT
CCTTTTATCTTTTCCTGACTATGATTATCCTGAATTTTGTGAACATAGAA
ATTGCTTTATTAAGGCGAGACATTTCCCAGATTAAGTTAAATATGTTGTT
TCTTTAATCATAAAGTAAGGTATTAATGATACATAGAGCAGGTGTCCTGA
TAACCATGGAATGATGTTCCTCTTCTTCCTGTCTTATATATACAGATCTA
GTGCTGAGGTCTCGATCGAACAAATTAATGGGACAGTTATTGGCAAGCAG
ACAGTTCGTCTATCTTGGGGTCGTAATCCTGGGAACAAGCAGGTAGGGTT
GTTGTTTATTTGATCTATTGGTTTACACCATCATGTAAAATTTAGAGGCA
GATCAATTACTAAATATTTACGGGAAAATATATTGAAACGTCCTTGAACT
ATTCCACTTTTATTCGATAGGTCCCTGAACAAAAGATTCCCCAAACCGGG
TCCTTTAACTTTTCAAAATTTTGTATCAAGTCCTTCCGTTAAGTAGATTC
TAACGGACGTTAGAATCTTTGCTGACATGGCGACACGTCACCAGCTGATC
CACCAGAATTTTTTTGACATGGCGACACATCACCAGATGATTTGTACATA
CTGCCATCATCATTCTCACTCTCTCCAGCACAATCTTCACTCCACTCTTG
TGCCAATACATTTTAAACACTTTATAACCAAGATCACTTCGAACATACTT
TTGAAGTATGAAAATAGATAACACATCTAATTTCTGATTAAAAACATACT
CGACCTTACCTCCATTGTAGTATTTGATGCCACGCTCTTGCACGATCTCA
CTTCCGTGATGAATGTACAAGGTGATTTCGGCCTTCATGTCTGTGAATAG
ATGTCGAGATAGTTTGTGATGATAGTATGTATTTAGTGTAGTGCGTTTGT
GTATAGAAGTTGCCCAATCTAATTTACTGATTAAGAACCCTAATTCCTTT
TAATGGAACCCTAAAACCCTTTTGTAGATTGAAAGAAATGGGTGAATCGG
GAGATATAAACGTGTTTATAAACTCACATGCAGGGCATGTGACTTGTTTT
TTAAATTTAATTTCAGTTTAATTTCATTTTTCTTTTAATATATGTACAAT
CAGCGCCATGTCAGCGATGGATCAGCATTAGTCGTCGCCACATCAGCAAG
ATTCTAACGTCCGTTAGAATCTACTTAACGGAAGGACTTGATACAAAATT
TTGAAAAGTTAAAGGACCCGATTTGGGGAATCTTTTGTTCAGGGACCTAT
CGAATAAAAGTGGAATAGTTCAAGGACGTTTCAATATATTTTCCCAATAT
TTTAAAATATGATCGCAAAAACATCTCATTGAATATTCTCCATTCTAAAA
TTGTTACAAGCAATTCCCATCAATCATACTGTTATACATAAGAATAGCTT
GATTTCTATTTTAACTTTAGTAAAATATTATTATATTAATGCTAATCCTC
ACTCCAACTACTTGCCACGTTTCATCTACAATTTTTTAAAACTTCTACTT
ATTATTGAATATATGCACTGTATAGCCCATGGTTCGTCTCTGTGGTTTTG
ATAAAAGCCCCCCTCCCCTGAACCCCCAAAGAAAATACCCCTAATCTACC
CACAAAGTTTAATGTAGCCCCAGAAATTGGTATGGAGTCGTGGCTTGATT
TTGGGCTTGGACACCAGTCATCACCTTAAGGGATCATTTGGTTCATGAGA
ATTTGGAATGAGGTATGGGTTTTGTCTATTCCAAACCCGTATTTGGTGTT
TGGTTGGAAAAAAAATAAAATTTCAACCCATACTTCAAACCCCTATGATA
TTGGTTTTTGATACGTAAATGGGGAGGTGGGTATGAGATGGAGGTATAAG
AATCAATTTATTTTTTGATTTTTTGTCTCTATTTAAGGAATTAAATATTG
ATGTTTTATACAAGAATAATCAATGATGCAAAAATATATAATAATAATAA
TTATATTAATAATTTTAATTAATATAAATTAATAATTTATTTTTTTTAAA
AAACAATGAATATATTGATTCTAGCACTCAACCAAACACATGATATCATA
TATGATACCTTAAACTCATACCATCCTAACCCGATTCCTCATTCCAATCT
CATATCACTTCGCAAACCATACGACCCCTAAGGGACTTGTGAAACTTATC
AAGATGATCAATAAACAATAAACAATTCAAACACTCTGCTTTTCTTATTA
TGTTCGAAGGAGTCCTGTTTTAAAATCTTTTGTTTATCATATATTCTGTG
GCAGTTTAGAGGTGAATCTGGTAATCAATGGAATGGGAACTCTTACGGAA
AGCAAGGATACAACGGTTATCAGGATCCAAACATGTATGGTGGTGCTGCT
ACAGCTTATGGGGCGTCAACAAATGGGTATGGAAATCAATAACAGCCTGA
AAGATGATATGGGTTGGTGGTACTAGTTTGCGAGATCGAACTTAGGAGGG
ATATGAGGCTTGAGGGATATGTTTCAAGACTAAAATATGTACTACTATGC
TAAATTTTGCAGCTGGATATAGTTTCATATTAATTTTCTATTACTTTTTC
AGACCTTTATTTACTATTAACAACATAGGCTAGGATTTTGGGGGTGA