| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017394615.1, is a part of gene, LOC108220731. |
| The genetic_marker, MK003274 K0718, is located in gene, LOC108220731. |
| 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_017394615.1 | XM_017394615.1 | mRNA | DCARv2_Chr1:9763396..9771570 |
TAAGCAGGCAAGCAGCCCAATGTGCAGTTTGTATTCTACTATCGCTATGT
GTTGAAAAATATGAGAGTAGCAACAGCAGCTAGTCGCTTCTTATTCACAT
CCTCCTTTCCATCTAATTTTAACAACCGCCATTTCATAAACCCTTCTTCT
TTTATTAAACCCTTAAGAACAACTGCAAATTTGAACAAATCCCCTCAATC
TCGCCGTCGCCTAGGGTTCTGTGATTCTTCCCCGCCACCAGTATCCGCCG
CGACTTTTTCGCCGAAAATGTCGCCGCCGCCGGAGGTCGAGGTTAGAGAG
AGCATTGAACTGAACGACAAGGAGGTGCAGATATTTGATCGGTTGCGAGA
TGTTCTGCGACATTTTCGGCTCGATACGCAGCTTCGTGTTGCGGGTGGTT
GGGTGCGCGATAAGGTACGATCAGTTTGATGTGTGTGTGATTGTTGATTG
TGTTGTTCCTGTGGTTTGACTTGGTTGCGCGTTGAGTGATTGAATATCGA
TGAGTCGACTCGAGAGCTTAATGTCGTATTTTTTAGTGATGTGATAGTGG
TAATAATTGATTCATTTTTGAGAAAAGAATTAAAATTGATTGATTTAGTA
TGTAATTTAATGTATTTGTAGTGATAGTGCGAGTAATTGATTGATTTTGT
ATGTAATTTAAAGTGTGTGTGTTAGGATAGTTATTTACAGCCTGAGTGAT
AAATTGGTTAATCTAGTTTGTGTTATGTCGCGTTTTCTTGATATCTTCTT
TATTCTGATTGAATATATAACAATCCATTTGAATCCGGCTTTGACTTCAG
ACTTTTTTGCTGTTTAAAAAACTTATGGCAAATTACAGTGTGATAGACAT
AGCCAAAACAAGACTGAAGTAAACATAATTTTATGTGCAGTGATCTTTGT
TTATGCCTTAAAGACTTGTTAAATAATTAAATGACTTCTATCAGTTTAAA
TGGTGTGATGGAATCTAATGACTGCTGTTTGTATTTGGTTAGACTTTTTA
TTGTTCTTGAATCTGGTAGATTGTTCTCAGAATATTTATGTGGATCTTAG
AACGAACAGAGAATTTTTTGTTGCGCTAGTACCCACAAAATATCTGTAAA
GGTCCACTTAAAAGTTATAGGTCAAGCAATCCGGACATGCTATCATCCTA
AGGTCTTTTAATTTATGTGCTGTAATGTTTTAATATATGTGCTGTATTGG
GTCTGGAACAATAGACATTAGCTTCTTCTGTGGTGACTGTTTGAATATAG
CTGTTGGAATATAGCCGTTGGAATTTGAAAAAATTAATAAGATACAGTTT
TTTTTTTTAAAATATAGCTAACAGTTATTGCCAACACTATTGGAATACAA
TACTTTACAAGTTAAGAAAATTTTACCTAAATTATTGTATATTATTTTAG
CTACTCCCCTCGGAGATGCTTAGTAAAGCCAATAAAGCTAATTAAGTCCG
AGTGATTGAATGTAGACTATAGTAGTGTAATGACGTAAGTGAAATATTAG
GAATGCGGATACCTATGTTCTAGTCATACTAGGTAATAGATCAATTTTGT
AATATATGTGCTATATATGCGTCCGTGTGTAAAGCTTATTTTATTTGAGT
GATTGATTATAGATGATAGGATCATAAATGCATGATTTCTAGTAGCTATG
CTTTTATTGTACTGGTTAATAGATTATTTTGTATGTTTTACTATTTCTGT
ACATTGTATATCTATGTTGTTAGGAAAGATAATTACAAGCGAGTGATTGA
TTGTCGATGATAGGAGCATGATGATCTAAATAACTATGCTTTATTAGTAC
CAGTAAATAGATTTATTTACAATGTATTCGTTATATATATGTTGTTACTA
AATTCATTTCAACCTGAACGGTGAAATTTTGAAAATTGGGAATAATGGCA
GAACTTCTTAGTTCATGCTCTACTAATACTAGTAAATAGATCTTTTTTGC
TATATATGTATGTGTATGTGTTGTTACTCAATAAGACCAGAATGATTGAT
TAGGAAAGATGGGAGTATGATGACAAAATTTCTGATTTCTGTGTGTTGAT
GATATAGAAAATTATTTTAATGTGGACAGCAAGTTAGAAAATGATTGTAT
TTTGTTTGATGAGTAATGAATAATTTACTCGAGGATTCTGTTTATTATGA
TTTCGGCAATCCAGTTGTAGAGGGTAAGAGTCAAATTTGGGATGAATAGC
AGTGAATGCATACTCTAGAAACATGAAAAGGGTTATGGATATCACTGTAT
CCATATTCAAAGATATGTTTGATTAAACATGTACCGGAAGATATTTAATT
GGCATTAATATCACTTGATGGGAGCGCCATATTAGCGCAATTTATTGTTT
ATGGGTGTCATACGTGCGAGGAATGACGTGTGATATGATTTTTAGTTAAT
TGCATCAAGAGAAATGTCGTCCTAATATTTTAGAATTATAGGTGTGTTAA
AAATGAGTGGCTAAAAGTGAAACAGACTTGAATTTAATATTTTAGAAGGC
ATCTTCCTTTACTTAAAAGTGAATTTTTAATAAAAATTGTATGTCCTTGT
GCATGCAATGAAAAATTCTGCTACTCATATATAAAATCTTTTAGCTAGTT
GCTTTTTGAATATAAGTATTCTATTTTCTTGCAAGTGTTATTGTTCTGGT
TTTAGCTTATATTTATCATTTTTCTTGCAGCTTCTAGGCAAAGAATGTTA
CGACATTGATATTGCTCTTGATAACATGTTGGGTAGAGAATTTTGTGAAA
AAGTAAATGAGTACTTGATATCTACGGGGGAAGAGACCCATGGAGTTGGT
GTCATTCAAAGGTAGAGTCCCCTGCAATATAATGCAATATCTTTTTTTAA
GTATATGTGGATATTATTCAACTCCTAAAGCTTCTCTAATTCATGTATTA
CTTTGAGATCAACTGCACAAGAGTCAAGGGCAAACATTTCAGAGTTATTC
TCATGTGAAAAACAAGAACCTTGATGTCTACCAAGAGGAATTTTACCTTC
ATACTACCTTGAGGCAAAACTTGGGAGATTAGTGTAATTTAATTTATTTT
TGGTGAAAATCTATTCATATCTTAGCAACACAAACTCTTATACACATATA
GTTTTGATGACTGGATCCGTTGGACTGTAGCTAACGTAGTTGTGGACATC
TCTTTTGGGGGGAAATTGCTAATATCTTCTCTTTACTTAATTTGACGTGT
TGTTTTTGTCTTCTCTCATATTCATTGAACTAAACTTAAACTTAAAGTTT
AAGTTACTAATTTGGGCCCAATTTCAATTTAAGCATTCAAATTCCTTCAT
CTTACCTGTACTTGCCTGATATCAACGCACGGATAAATTGGTATTCCTCG
CGTCCTAGATTCCATGCCAACACCACAAGTATCGACCTTTTAATAAACAC
TGTAAGTAGTAAAGAGAGGAACGATCTGCTTTTTGAAGTTTAGGAAATGT
GAAAAGTCTGCATCAATCTGTTGTAGGCGATTATCCGTGATTCTGGTCTA
TTAATTTGTCCTTTTGTTGTCTGCTTAGATTAAAATACTGCTCTACTTTT
TTTGTTTGTGTGTGATATTTTATGAGGTAGATCCTTACTTAGAGTATTGA
TGTTGCAGCAATCCTGACCAGTCCAAACACTTGGAAACTGCCACAATGCG
CCTTTATGATGTATGGATTGATTTTGTCAACTTAAGAGCTGAAGATTACT
GTGAGAATAGCCGCATTCCTACGATGGTAGACATATATCTTTAGAGGCAA
TAACTTTGTGGGCTTTTTGTATGTAAATTTACAAATGCTCGTTACCCGGT
GTCAATTTGTGATTTTACACGGATCCTATATTAGTAAAAAATCAAATGAA
CATTGTTTTTAAGATCTTTATTACATTGGCAAACACGTCTGTTGGGAGTT
TCATGTTCTAAGTTCTCCTTTTACTTGGATCTTTACATTCATACTACTAT
ACTTGATGAATAAAATTAAACTAATGTGGAATTGACATGTTGCAGAGATT
TGGTACAGCAGAAGAAGATGCTTATCGAAGAGATTTGACAATTAATAGGT
ATTTGCCTATATATTATAAGAATTTAACTCATTTGGTAGTTTATCTCTTT
TTAAACACGATTTTATCAAACACGGAGTTGACCTTTATTGTTTTTCTTTT
TTACAGCTTGTTTTACAACATTAACAGTAGGGCTGTTGAAGATTTGACTG
GAAAAGGTTGGCAACAGCTTTTCTTTGGTTTTACAAGTAATTTTAATAGC
TTAATCATCTCGTTGCCTGCTGATGATTGTGCTACAGGCATTGAAGATCT
TAGGGCTGGGAAAATTGTAACACCTCTACCTCCAAGGGAAACTTTTTTGG
ATGATCCCTTACGAGTTCTTCGAGCCATACGTTTTGGTATCACATTACTT
ATTTGCTCAAAAATTGTTGTTGGAGAAATGTTTTAAACAGCTATGCACAC
ATTTAATGAGCAGATAATTGATAATTTTTTTGTTGTTGTTGTTGTTATCT
TGCATTTAGGAAGTAGATATTATCAAAATTATGCTTCACTTATATTAGTA
AGATACTAATAATTTTATTTGTAAACAATAATATATGCTAGTTAGTGCTT
TTATATTCATAATGGTAGATAGTTTGGTTATTTGTTTTAAGTTTTTCGAC
TATGTTTTCATTATGAAATGAAATTCAAGTTCTGTGCTTTATTTGGTTTT
TTAACTTGTATCTCTTACAGTTAAGCTTGAATAAGTTTATCTGTTTATTC
CTTTTCCCGTGTATTTGCTACTCTGTGTTTATGCCTTGATTCACAACATC
CAGTGTGACTGCTAGTACAATATTGCTAAGGCTTATCTATTTCATCTGTA
CCTGAACTTTGTTTCAGGTGCAAGATTTGAATTTATACTGGATGAAGGCC
TGAAAAAGGCCGCTTCTGCTGATGATGTGAGAGCAGCTATTGCGGATAAA
ATTAGCAGAGAACGTATTGGTCATGAAGTATGTGATACTTTGTTCTTTGA
GTAATTTGCATGGTTCATTGACCATCTCATATTTGCGTAAACACACACAC
AAACACACACATATTTAAATAAAAACTAAATTATGACTCTGTTGTCTCCT
ATAGTCATAATGTCCCTTCTTTAAATATTTTCCTTTCATTCTACAGATAG
ATCTTATGGTAGCTGGCAATCAACCTGTCAAGGCAATGTCTTATGTATCT
ACTCTGCAATTGTTTTGGGTTGTCTTTAATCCCCCTCCAAATGTTAATCC
TCCAATCCCAGAAGAACATGAAAGGTACTTAATACGTATATATAAGAATC
TGTAATGTAAATGAATGTTGCGAGTTAAAATGTGGTTTTAAATTCTAAAT
AATAACAGGAAAATGTGCATTGATAAGAACATAAGTTTCACACGGACTCT
ATTGCTTAAATTTTGATGTTTCGCGTGAAGCATTTTTTTCGCCTTATGTT
TTAACTACAATACTACATCAATGTCTGGCCATGCATTCCAGCCACCTAAC
CAACTTCAAACATTTTATTAGGCTTTGTGTTGCCTACATGGATGCTGCAT
GGAAGGTTTTGCAATCAATTGGAGGATCCTTTAGTGTGAGTATAGTATTC
TACTTGATAATGACGATTGCTTGATTTGAATGCTTCTGTAGGATGTATAA
ATAAATGAAATGCGTGCATATCCAAGTTCTATTTTTTGATGATATTAGTA
ATACTGGTTTCGGTTAACAAATGCTTGTTAAATATGATATGGATTGAAAT
TTATGGTGCTTGGCTTGTGCAATATAATTACTTGTCAAATCTCAACACAC
AAGAGGATGAGGAATTGAGGTTATAGATGATTCCCTGAAACCCAAAAAGA
AGTGAACTGGATACAAGTGATTCCTTTATATTTTCATCATGGGGGCTGGA
ATGTCTCGAGTACTCTGACAACTTCAGTTGCTGCTCAAACATTATGTTTT
ATTTGTTTCTCTCGTGAATTTCAGGGTGATCAGAAGAGACTCTCCTTATA
TGCTGCACTACTTCTACCATTGAGGAATACAGTTTACATTGATCACAAAT
CCAAGAAGGTATTATCCTATTCAACTCGTCCTCCTTGTCAATGTATCTTT
TTAATCCCTCCATCTCTGTGGTTTGTTTGATGGTGGACGTCTTGGTGTGT
GCTTATCGCTTTTATTAAATTATGTATGTACAGATGTCTTTACTTGGTCA
TGCTTGATGAAAATATAATATATGTTGGGTATACGATATAATGTGTAAGG
TATTAGCAGGTCTGTTAGTCCTCTTTAACGTCATCTGCTCTACAGATCCC
AGCTGTCAGCTACATCTTCCGGAATTCACTGAAGCTAAAATCAAGTGATG
CTGAAACGGTTAGTTTCATGTTTATCTTATACCAGTCCTGCATACTCTTG
TTTACTGAAGTATTATCGTGTCAATTGATTATCTAATATTCTAATTTATA
CAAGTTAATATAATATCTGAAATACGAGGATCAATTGTAGTGCATGCCTT
GTTGCAGGTTTTGCGTCTACATGAAGCAGCAGAGAAATTCATGACGTTAT
TTCCTTTAATCATTTCCAACGAGGAAAAAATATCTGAAGTTTCTTGGAAA
AGAGAAATTATTGATGTACCTGTTGCTTCAAAGTTGCGAATATTAATAGG
TATTGGCTTAAATTGGGCAGCTTGACCTATTGTGATGGTATCTGATGATA
TAGACATGTTTTTGCTTAGCAAGTCCTTGCATACAAGTAACTTTGTGTGT
TCATGGAATTCTTTTTAGAATAAACTATCATTTTTTCATATGGCCCTTTT
AACTTTGTAAGTATTTTATTTAGTTCCCACTTTGTTAAAAGCTTTAGTGT
TTTGACCCCTCGGTATAAACTATCTGTTCTTATATTGGAAAACTTCAACA
AATATTTTCCCGGATTTTATTAGCTTATTGCGTACTTGTAGATACATTGG
TTTTTTTTACAGGTGGCTGATCCTTGCTTTATTTTAGGATTACTTCTTCG
AGAAATCAAAGATTTTTGGCGTCCTGCGTTGTTGCTCTCGACAATTCTCT
ATTACGATGATATTGATAGTTCAAGTTCATTTGAGCAATCTAAATTGGAC
AAAAGCATAGTCTTATTCAATCAGGTTGAGAGTGCAGTTACCACGCAAGG
TATGGGTTTAACTATCAGTATTACTAGTAAACTGATAATAGCGGCTGACA
GTTCATTCTTTAATAGTTATATAGATCTTTACATTTGATGATGTATGTTG
TTTATACATGTAGCTAAATTAATTAGTTGCAAATATTTCGTACTAATTTT
GAAGTCACTTGATAAAACTTAATCCCTCTTCTTTGTGATACTGAATGAAG
GTCTTGACAAAATATGGGAAGTGAAGCCATTGGTTAACGGAAAGGAAATT
ATGAGCGTTTTGCAGCTAAAGACAGGAGGACCTCTTGTGAGGGAATGGGT
AAGCCATCCTCTTTTACTGCTAAATTAACTATATATGGGTGCGGACTTTC
CAACCTTATATATGCTAATGACTCTATCTAAGCAACTGTGTATGCTAAAA
TTATTCCATCATATTGCAGGTAGAAAAGTTGCTTGAATGGCAGCTTGCTC
ACCCTTCTGGGTCTGCCGAGGAGTGCATCGACTGGATGAGACAAGCTCAG
TCAAAGCGTGCAAGGACGGAATAAGCGGTCTTTATAATTCTTCATACTTC
CCATATTAACTTACAGAACCCCTCCCCACTTTAGTATGATACCAACTTCA
TGTCAAAGGGCAGGTGAAGAGTAGTGTATAGCAGATGGTAGTTAACAGAT
CCTCTAATCGTGACTCAAATCAGAGAGGACGGAGAAAAAGCAATATTAGA
TCAAACTATATAAGCAAATTTTGCTGTCAGCCTACTGATTTGTTAAATTA
GGTGAGACGGAGTTTGTCGGATACTGGTAATGGAATCATGGCATAGATCT
TATAACAGTGATAAATATATTGATCAATGATTTAACTCATGCACAAACAG
GTGTAATTTTTTCCATCAGTCGTGTGGTGATGTGGTCATACCTGTGGGCT
GTGCTGTAACCTGTTACTGTCTCACATGTATGTAATTTAGTAAAGAATAG
GATGAAGAATATTATTTTGTGTTTATTTGTTTAGCACACTTGGTAAAGAA
CAAGTGAAGAATATAATTTGGTCA