| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017360133.1, is a part of gene, LOC108193468. |
| The genetic_marker, MK006294 K3738, is located in gene, LOC108193468. |
| 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_017360133.1 | XM_017360133.1 | mRNA | DCARv2_Chr7:33061469..33069081 |
CCCAAACTCTGCCTTCTTTGCCCTAAAATTAGTTGTAATAGCAGTTAAAA
AGTCCCATCTTTGCGAAACCCAGTTTTAGTTTCATCTCCTTCCTTGTTCA
ACGGTCATTATATATCTCGCCAAAATCAAATCAAATCATTCGTTTCTCTC
TTAATCACCTCCCCGCAAAACCCCAAATCGTTATTTTCGATTTGGGCACA
CAAATCATTGTAAAAATTTCATCTTTTTCATGTTCTTGAACCCTAACCAC
TTTCTTGAAGCTTTGTAATACAGGGGGAGTTTCTTCAAATGAGCGCAAAC
CCATGATTTTTTGATTTTTTTAAGAGACCCCATCATGTCTAAAATCGAAG
AAGACTCTTTTTCAAGCCAGCCCAATTCCCAAGAAACCAAGAAAAAGAAG
AATTTGAGTGGTGATGGTGATGAGAATGGGAGTGATGTGGTTAGGAGAGT
GAGGCCTGCTAGAGCTTGTACGCTTCGGGCTGCGTTGAAGGTTTATGAGG
TGGAGGAAGATTGTGGTAGTGAGAGGAAGAAGAGTAGGAAGAGAAAGGAG
AGGTCTTTGTGTAGGGAGGAGTCTCCGGATCAGTCCCCGCCTCAGGACGA
GCAATGTAGTAAGATTGTGACACCGTTGGTTGCGGAGCCAACACTTTCTC
AGCTGCCGCGGTGGAGTATTAGGTCAATGTGGGAGTTGGGTTCGGTTCTT
AATTTTTTGAATGTGAGCTGAATTTAGTGTAAAGTTTAAAGTTTTTGTGT
TGAATTTTGCTGTTTGGTGGTAATGTGTGTTTGTGATTGTAGGTGTTTAG
GCCGCTTTTGAATATCAAAGTGGAGTTCTCGATTGAGGAGCTTGAAACGG
CTTTGATTACACCGAATAATACTTTGGCTGATATACACATTCCTTTGTTG
AAGGTTGGTGTTTTTGTCCATTAGCTTATTTGAATGTGCTTCCTTGTGAT
GTAGAAATGCATGCTCTTCTTGGTACTTGCTTTTAATTAATATTGCATGT
TCATTATAATGTGAAGCTACATTGTTTCTGTCCACATTTCTTTGTTGTAA
AGTCCATATAGAAAGCATGTAGTTATTGTTAGTTTAGGATGTGGTTTACC
ACATCAAAGTTGCAAAAGGCAATGCAGATCTTATGTGTTCAAATTTTCGA
AGTCTATGAATTTTCTTACTTTTCACTTTAATGCTCATAAAAATCAGTTT
CTTTACGATGCTGTTCAGCTAACGACTTTTAAGGTAAAGACTTCTGGCCA
TATATTTGTTAGGACTGTGAACTCCTGCAGTTCCAAAAAGGATGAAATTT
TCTTTCTTCTGCTGACACCTTGCTACGTTTCTGTTATACCATAATTACTT
TTGACTGTGCCGCATAAAATAGGCAAATCTGTTAGCCCATTCATTAATGA
TTACGACTTATTAGACTTTGTTGTGAAAAGATTTTGTTGTACCGCATTTA
TATGTTCATAATGTAAATTCTTCAATAGTCTATCTACTAGCTTGTGTAGT
GAATATTCTAATTGCTTCTTTTCTTTTTTCAATCTGTATGTCCATAATAT
AGGCTATCCCACCTATTGCTCGAATGACGCTTGGACACAATACTTGGGTC
ACTGTTCTTTGTAGAAAGTTAAGGCAATGGTGGCATTGGGTAAATACTTG
AGATTCTTGAACTTAACTCCTAATTTATTTCCCTACTGATCCTATTATGG
ATATTAATGAGGTTGCTCCTGTACGCAGGTTGCCGATGGGGAGCTACCAA
TAATTGCATCTCATGGGTGAGTATCTTGCATATATCTAAACATTTAGATT
TTTTTGGATTTAATATGTGACAAGGTTTCCTTGCATTGATTTGGTAGATC
TGAGGTTGAAGCATATAATAAACTTGATCCCGGTGTCCGGGTGGTGATTT
TAAAAGCCTTGTGTGATATTCGTGTCGAGGTACTTAATAATTTTTTTTTT
TTAATTATGTATGATTTCCTTATAACTATTTCCTACGGCGTGTATATCCG
GCCTTCTCTTTATGGAGGCATTATTAACTGTTGTGCTTGATATCTTCCAC
TGTTAATGGTCCATTTAAAATCATTTTTATAAAACAAAATGATAAATATT
GCTGCAATGTTTTGGTGCTTATATAAAAGAGCTTATATATGAAAATAGAT
ATGGGAAATTATAAGAATTGTGAAAGAAAGTAGTGAATTTCCAAGCCACT
GCTGGAAAGAAGATAAATATATACAAAGTCTCTTAGGTTGCAAGAATATT
GAGGTATAATCTAAGTATCTAAAGTATAAAAAGGAGGTTAATTGAGCACC
ATGCAGATTTAAGGGACCTGGGGTTGCAGGTTAACTAAAAAAATTCACCT
GAGTTGAGATCGTGAAGGAAGGGCTCGCATGAGCAAAAGCTAACTTGTAT
GAGAAGGGCAAAGGGCAAACTTTGTTCTGAAATTATAATTTTGTTGAAAC
AAACATTGAAGTTTGTAAAACTATGATTTTCAAGCCACACATAAATTTGT
CTAATCTTTCAAGGTCTGTCAATAGATAAGTAGCTTTGTCCTTTTTTCCA
GGTAAAAATAAAGATAGAAACAGAATTATATATTACTAGCTTTGAGTTGT
CTTTCCATAGTATTTTCCAGGGACATAATTATGCTGTGTGCGCATACAAT
TCTCTATGTTTGTTGTCACACTCGTGCCCACTGAACATGACATGGTGTGG
GATTGGGATTTGATTCCAACACTTTATTTTTCAGCATCCCAAGATAAATT
AACATAAAAGGTCTCCTCGCAACTTTTTATAAAGAGCAAGGTTCAGGGAT
AACTTGTTTCTGTGTTTTTCTTTTAACTCTATGCTACAGTTTAACATACA
TATTTTTAACTGTTTACATTTGTGTGTTGTAGATTTTATAATGTGTGTAG
TAGACGCTATTTCTATAAATGCACAGTCTATATAAAGTAAGCTTACACGC
CGAGTCCCCTCACGCATGCCCAATTTCGGATCCATAATCAAGAATCTAAT
ATTTTAAACTAAGAATCTGATTCTTGGATGTGCATTGGTGTCCAACCCCT
GTAACTGAGTCCGGGTAACTATAGGTGTATATTATGTGTACATTTCTTTG
TAACAAAGAGGAATTCATTATTAACTGATCACTTTTTATTAATTCTATCA
GAGTCATATATTCAAAACAGACTAAATATAAATATTGTAGTTATTAGTGT
AATTATATATAGAGGCTATAAGAGGTCCGAAGTGCAATAACCAAACAGAA
AATATGAGATATGTGTATAAGTTTGAAAATGGATCGTCTTTTATTGGTAA
GACCGTAACTCTGTCGGTGGGTCAACTAGTACTTTGCTATCCAAGTGATA
AAAACATATAAAGGTGTTGTAGACGGTAGCGAATAGTGAAAATGGTATAT
AAACCAACTTAATATTAGTTTTAACTGATAGTTTTTCTTATTTCACAGCA
AGAAGACATACGGAGCTATATAGATAATTCAATAAAGCATGGCGTTCAGC
TTTCAGTATTCCGTAAGGAACGTATTGGCGGTGATTCTCGTGGAATCTCC
TATTGGTAATTCCTTATGCTTTTCACATTTATTTTAAGGTTCTTTTTCAG
GTCATCTTCTACCAATCTGCTTTATCCTGTTGTTATGTTAAAATGTGTAC
AAAAATGTCATTGCTTGGTAAATGGAACACCATTGATTAGAATAGGTTTG
ATATAAATTGTACATTTTTGGGTATTTAATATTTCACTATCTTCATATGT
TTAGGTATGAAGATGATCCAGTCATCGGTCATCGTTTGTACAGAGAAATT
AGAGAAATTGAGTTGACGAAAGGGAAGGGAAAAAGTGTACAACCTATTTC
TAGTTCGTGTTATCAGTGGGAGACAGTAGCAACCAGTTTAGATGAATTTC
AAGACGTTTCTGTAAGTTTATCTCGCTTAATCCCGTGGTCTTTGTAAATT
TTGCTGTTTTGACTTTTGACCTTTCTTGGCTTGTTTGTAACTCACAAGAA
ATTCTGTGTGAGCAAATACACTTGAGAACACATCTGTCGGATATAATAGT
TCATGTTGCTGGATTCATTTTACTTTATTCACTATCATATTAGGACGTTT
AAGGAATATTAAAGTTTAGATAGAATGTTGTTGGCGACCCTATATATGAA
CTCCTGCCTCCTTTATGTAATTGCTACCAATTTCTGCAGTATACTTATCT
TTCACTAATATGTATTGCAATTTAAACTTCACAAACTAACACGTATATGC
GGTGCCCATTGATAAAATTTCACCAAAATATCTGCACATAACACAAGTTA
GCATCACAAATGCACCTATTAGGACATATATGTGGAATGAGTCTGCACTT
CGCATGGACAACTCAAACCTGAAGTAAAGGATTGGTTTGGACAAACACGT
CGTAGTGTTCTTTTAGCCAAAGCCCAAAGGTCAACAAGTTATACAACCTT
GGGCATTAGGACATGTATATGGAAATGAGTATGTCGCATGTACAACTCAA
AACCTGAATAAAAGAATTGGTTTAGACAAACGTATAGTAGGGTTCTGTTA
GCCAAAGCCCAAAGGTCAACAATTTAACAGAATCCAGAATTTTAGAGGAA
AGATGTTCATCTACATTAATAGAAGAAAATATAGCACAAATAAAATATAG
GTGAAAAGAGGTCAAAATCAGATCTGCAAAGGGTCAGTATCACTATTTCT
GTCTAACCATATCCATGGATTCTATAGTAGTAACTGGAAAATTTAGACCA
AGTTATTAGTTTAGAGCATTTAGTTAGAATTTTATACGTCTCTCGACTAC
TCAATCGAAGTCCACTTAGATCTTTGGATCTTTGGTGTTCAACCTGTGCG
AGGCTTGTAATTATTTGAAGGGAGCAGATCTATCTAGGTCTTGATGGCAG
GCTTTCGGATTATGACATTCATCTATGAAATTATAGTTTGCCCTTTCAGC
TGATAGATATATGTGCGTTCTTTTTGTTTTCTGGTTCTTGTGCTGTTTAC
CTGACAGGCAATGTTCTGTCTCAGGAGAAGCTTTTAGCAAGCAAAAACAG
AAACGAGTGTTCTGTTGGAAAGAAGTTACATAATGACATGCTTCCTGAGA
TTGAGAAGGTCCACAAGGTATTTTTTTGTGACTTAGTACTGATTATTATG
TTTGAAGTTATTGTTATTAAGGTAGACTTTTTTAAAATTTTTTTTATTAT
TATTATCTTATTGTGCAGTATATATGTGTGGGTGATCATATTTGTACATT
GGTGGTTGTCTTTTGTGCAGAGAAAGGAGAAAATGTTGAAGAAACAACAT
AGAGAAGCTCTTCTTCTTGATAATATGATGGGTGTGAATGGGCTTGCACC
TGGACATTCCCTTCGTGGTAGAAAACGTGTATCATATACTTTTGGTAAGG
CTCTCGTTTAGTGGGTTTTTTTCTCTTCGAATTTTATCACAGATTCTTAG
TATTTTTAAAGAATATGTGGGTTAAGGTGTCTCTCTGTCTCTGCCAATGT
TGTTAAATGCGATATGTGCAAAGGCCCCGTGGAGCATAAGCGCAACGCGC
AATGCGAAATGCGCAATGCGAAATGCGCTGATTCATCGAAGACAAATAAA
TATACATATATAAATGATATATAAGTAGAATTTTGTTAATTTATAGTAAA
TAGACATTTAACTCGTTCTTGTATGTATATCTGGTTTGTATCTATTAGTG
TCAGTTGCTACAAGATCCGTAGCTGTCTTTTTTTACCCATTTCCTTTTAA
AATTACTCATTTTAATAAAAGCGCGCTTATCTTGCGCTTTTGAACTGCGC
ATAAGCGCTCGATACACATAAAAGCGAGCGCGTCGCATCTCCGAAGCGAT
GTACTTCAGGTGCACATTGCATCGCATCTCGCATATGCGCGCTTTTAATA
ACACTGGTCTCTGCCAACCAGATATGTTACTATGATAATATCATAAATTA
CAACAATATCTTGCATATCTTTATATTCCTATATGTTAGATTACATACCG
GCTTTTTAATATTTGATAATTCCTTGATGAATCTTTTATATGTTGCAGAT
GATTATGACCGATCAATAAATGAAGCTATCAAATCAACAAAGTATGTTTC
TTCTCACTTTTCCAATAAATTATCCGTTTTACCTCTAGTCACTTTTTACT
TGCATCTGTGGTTGACAAAAAGCAAACATTATATGACTTCGAATTTACAT
GTTTGTTTCTTCAATAGTAAATACTGACAACTTTGAATTAAATTGTGATG
GCAAGTGCTAAGTGTGTCGTGAACTCATGATGCTCTTAAAAAACTGGCAC
TAACATATTGACATGAACTGACATTTATCTAATTCATATCTCTTGCGCAG
AACAAAACAACCATTTTCTGAACATCCCGTCAGAAGAGAGGGTTTAAGAC
ATAATTCTTCTTCAAATGGCAGTAGTAGACTGGGCGGCCGTTCACAAAAT
CCTCAGCGTGATTCATTCAATGCTTTATCACCTAAATCTCCTAATTATGT
TGAAAGTGACTACGAAGATAATTCTGGACCATTAGATCGCAGGTACATTC
ATTTCTTCTTACTTTCTTGTGATGCTTTTGTTCCTTTTTTCTTCAGTTTA
AAAACTTGCAACTATTGGGAACTTTTTTTTGCAGCAATCGGCGTAGGCAG
AGACCTCAACGATATTCAGAAAGAGAGTTTGTAGAAGCGGTCTCAGATCA
AGAGGCAGGCTTCGACAGTGACAATGATATAGTTGGAGAGGTTGTGTATG
ACGAAGATTATTTGAGGAAACGGAAAGATATGAAGAAAATAACCAGTAGC
TCTGAAGGAGATGAAGAGTATTATTGGGAAGGAGAACGTGCTGAAGAGGA
AGAGGAAGAAGAAGATTATGAATCTTTGAGTCTTAGTGAGGATAGCAGTG
AGCGTCCAAGATTGAAGAAATTACGAGGCCAATCTAGGAGGGAATCAAAG
TCGAGGTCAGTTCATGATATCCAATCAGGTCTAAGACGTAGTAGAAGGGC
CACCAGAAACCGTATTGATTATAGGCGATTAGATGGGTCAGATTCAGAAT
ACGAGTGCCTAGAACGGGAGGGATTGAATGCACAAGACAAGCACACCAAT
AAATTTGAATCTGCAGAATTTTCGATGGGAGGAAGTGAAGATACAGAAGA
CAATGATGAATACCAGGAGATGAAAAGTGAAGCACCTGTTGAAGAGAAGC
CCAATGCTGTAGAAACAGAACACCAAGTACCTACAAAAGGTCATAGCACA
GATCAAGATGAGTCGGAAGGTGTACAACAAAGGCGTTTTCTTGATCTTAA
TGAACTTGCACCAGGGCCTGGGTTTGACGACGGTCTGAATTCAACTATGA
AAGATGAGGATACTGACAACTTGTAAGTCGTAAGGCTTCTCTTGGAAAGC
TGTTTGTATTATTAGATAATATACGGACTTTGGTCCACTATTATGGAAGT
AAAAGTTAAATAGGTCTTCCATGCCAAAATTTTGGCAACTGCCTGCCTGC
ATGTTTTATCTATGACCATGACAGGCAATATATAACTGAGAAATTACTTG
CCAAAGAAATGTCGGGAAATTATGTAACATTGGTTGTTTTTTAAAGTTTC
CTACAAGACCAA