| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017381627.1, is a part of gene, LOC108210377. |
| The genetic_marker, MK002705 K0149, is located in gene, LOC108210377. |
| 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_017381627.1 | XM_017381627.1 | mRNA | DCARv2_Chr3:11683671..11691934 |
TGCACAAGGCAAATAGAGGCCCACGTATCCAAAGAGAAGAGGCAGTTAAG
CGAGTGGTCTAGCTTAGCTTGTGTTGAACTCAAACTCTTTTAAATTATCA
ATACTCTCAAATTCGAATGCTTTAACATAATCTCGGCAATGACGATTACA
GCTACGGCGGCGGCGGCGGCAGTAGTTGGCGGAGGATCCCCTGTAATAAA
CAATCTCCATCATCGTATTCGTATTGGTATTGAATCGTTAACACCCAGGC
TTTCTCGTACTAATGGAACCTCCAGCTCTGAGTTGTTCAGTTCTCAGTTG
CGGCCGCTTCTGAATCATCGTAAAAACAAACTCAATTTCATTTCCCGAGC
AGCTGATTCTGCATCTACTCAACCTGCTGCTGCACCCAATAAGTCCTCTC
TGGTAACCGATGAGGAATTCTCTCTTGCCAAGGTATTCTAATTTATCCTC
ACCAAATTCATTTTGTGTTTTATTCTTTGATTCAAGAAAATTCAGTTTTG
TGATTTGTTCTGGTTCTTGTTTGAAGATGATCTTAGATATGGTTCTGGTT
TGTGCATTTTTTATTTTTTATTTTTATATTTTCAATATTATGATATGACT
ATTTATTGAGTTATTAGCACTTTACATAATTACATCCCTTATTTTTTATG
CTTTTTGGGTTTAGTCTCGACACATGTTTCTTGTTATATTACACCTCTAA
ATTTTAAACTTGTTTAACTTCGCATCTTTTTACCAAATTCCGTCCGAATG
ACTATTACAGTTAGCATAAGTTGGGGTAAAATATTAAAATTTTATATAAT
TATAATTTGAATTTAAATAAATCTTTCGTATTCTACCTCTTTTCATGCCT
AAAATAATAGTTAATATGAACGGAATTTAGTCAATAGGGTACAATATGAA
GCGAGTTCAAAACATGAATGTGTAATATGTAAAGAAATATTGTTTGAGAC
CAAATCAAAGTACGCCCAAAAATAAGGTGTGCAAAAATAAGGTGTGCAGA
GGTCTTTTTATTTTCTTTTGACCAAGGAAGAAAGCTTTCATTCAATTAAA
TATCAGGCATACAAAGAGATAAGATGTCACCAGGAACATCAAGTTCTGAA
AAGCTACGATCCGAGTGAAGATAAGATTGCCTTGCTAAGCAGTGTGCCAC
CCTATTTGCTGACCGTCTAATGAAGCAAACTTCAACATTAACAATGTCTT
GCAGGAGTTGTCTGCAATCCAACACAACCAACCCAAACGGAGAAGATAAC
TCCACCGAACTACGCAGAGCTTGCACTACCTTCATACAATCAGATTCCAC
CAGCACTCTAGTCCACTGATTCGTTTTAACCCAACTAAGAGCTTCCTTAA
CAGCTATCACCTCTGCTAGATTTGTAGTTATTCTTCCAGTTTTGCTCGCC
ATCTTGGCTCCCAGAAATCGCCCGGAATGATCCCGAGCTACACACCCAAA
CCCAAAGTAATGTTTATCATTGAAAAGGGCTGCATCAACATTTATCTTGA
TTGTGTTGACATCTGGTTTCGCCCAAACCTCACTACCATCCCTCGCATTC
AAAGACACAACAGACGGAGTAAAATTCCTCAACTGAGCTTACAACCATTG
ATCAAGAGTAATCTGAGCAGTGCGAATAACCTCATCAACGTGAAGGTATG
TATCGTGCGAAACCACTGTGTTACGAGCTTTCCAAACAGACCACAGCAAC
ATCACCAACTTAGCCAGCCTCAAGTTGTCATACATATTCATTGCGCCTTG
CAGCCAATCAACAAAGTTATCAAAATCATCCGGAGCGTTGCCAAACCCCG
CCCCTTGCCTACAAGCCTCGGCAAAATCGCATTGAATCAAGCAATGTAAT
GTTGTTTCTCTCTATCTAAACACATTGGACATTGCATAAGAATAGGAACA
TGACTCCTGTTTAAAGATGATTTTGTCGGTAAAAAACCATTACAAGCCCT
CCATAAAAAGTTTTTAGTTGTAGGTGGGATTTTCAGGTTCCATAAACGTC
TCCAGAAGCCAGAATTGGCATTAGACACCCACGCTCCTTTCATTTCCTGC
ACTAGTCTGTATGCACTTTTAACAGTATACATACCTTTATCATCTTTAGA
CCAGTATCTAGTATCCTCCTCCTGACTATAACTAAGAGGAATCCCGAAAA
TCAGATGTTGATCCCTCTCCACAAATAAATATGAGATGACCTCAGTGTCC
CAGGCTTTTCCCCCCGGTTTCATCAGAGCAGTTACACACTGATCAACAAG
AGCTGGGTGATTACTAACAAAAAATGGATGGTCAGGATCATTCAACCAAG
CATCATTTAGAATACTTACCCTTTCCCCAGACCCTACCCTCCACTTTGTA
CCAGCCTTCACAAGACTCTGAGAGGCCCAAATGCTGCAGAGTTCTTATTA
CTCTTGTTTACTTCTTACATTTTTCCCGTCAATCCCCTTAATGCATACAG
TGTGAGCACAAAACAGTAAAACACAACTCAGTCTTAAGTAATTCCTTTTG
TTTATTATTTTTCCCCTCATTTTTCTTACAGTAGTGTAAGTATTTCAAAA
TATCATGATTAAATATTTTAGAGATATTTTAATAGTGCCTTTATATTTCA
ACTTCTCCAAGTAGTTTTCTTTTTATTATGTCTTATGAGTGATACCTTTG
TATTTTAAGTTTTATCTATATCAATATATCACGAAATATTGTTATATAAA
TGTTAAATTTTAAGTAAATGACTTAATTAGTCATTTAAAATTCATAGAGG
TTCATCTAAGTTTGATTTTTTTTGAGTTTAAAAAACCATTTAGATAAACT
TTGAGTGATTAAAATAAATCAAATTCGTGTTTGATTTCACTCTATAAACA
CTATAAGCTAAAAGGTCGGATCCATTACAAATGGAATTGAATAAACAACA
CTAATAATACATCTGGTGTATCATAAATTGTTATTATAATTTGTGCTTGT
TTATTGACAGGTTTCTTTTGGTGTCATTGGCTTATATGGTGGAGTGTCAC
TTCTTGGGTGAGTAAATACTTTTGTGACTATACCCCAGGTTCCTCATTCT
TAGTTATTTGTGGGAAATAGAGAGAACACATAGTTTTTGAAAAAATGTAA
ATTTTATAAAGTCTATTACTCCCTCCGTCTCTTAATACTTTTCATGTTTG
CCTTTATCACGTTTGCCAACACAAACTTTTAATCATTAATATCTTTAATT
TCATATTAGTATTAAATATATAAATTTCATCGTATTAAAGTACTCATAAA
TATGAATCTAACAAGATCTCTCATGACTATTTGGTCTTATAAATTATGCG
TGAATTAGTAATTTGTCTCATGTTGCGAACAGTTCCAACATCTCAAACAG
GAAAAGTAAAAAGAACCATAGGGAGTATTATTTGAATATTTGGATATTTG
TGCTCACAAAATTCAATATCATTTCTTTTGTGTTCTTATTAGTTTTTTTT
CTTCAAGATAATAACAAGATAAATTCAAAATTTAAATGAATGAACTTTTG
TGTCCTCTTCCGTATGATGATGTGTATTATTATTTCAATAAAATTGACAG
ATATGGTTTTGGAGCATACTTTAACATCCTTCCTGGATCTGAATGGTCTG
CAATAATGCTAACTTATGGATTTCCTCTTGCAATTATTGGCATGGCTCTT
AAGGTATAATTATATAATTTTATTAGTCTTTAAGCAATTAAAGTGTGCTT
CATATGCTTTCCTAATCAAAATTTTAGTTTTTTTATCTTGGGATTGTTTC
TATTATTACATTCCGTTTTACACACACATGCGCGTATTTTTATATATGTG
TGTGTGTGTGTGGGGGGGGGGGGGGGGGGTGTATATTATTTTTACAATCG
TACTCGTGAAATAATGCAGTTACTCTTTTTCCTTTCAGTTTAGAACCNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNCAAGTGAAACATTTTCCTATGGA
AAAGCATCTTCCTGGTGAAACCGATGGGAAGATTTGGATGTGGAGTCGCT
GTGGTAATTGTAAACCTCAAAGTGGCAACACACAATCCACAAAAAGAGTC
TTGATATCAGCTGATGCCCGTGGGTTGTCATTTGGAAAGTTTCTGGAACT
TAGCTTATCGAACCACCTGTCGTCTTGTAGTTTCTCTATATGTGGGCATC
CATTGCATACTGACTGCCTCTACTTCTTTGGGTATGTATATTTGTGTGTT
CTTTCGTTTTGCAGAATGGACTATTTTATAACTGAGTTTTTAAGTTTCTT
GTGTGTGGGGGTGTGGGGGGGGGGGGGGGGGGGGTTGTACTTCTATCTTG
GTAAAAGCCACAATACATGCTTTTCATTTAAATCTTTCACTCTTAATAAT
CATCAATAAATTAATATAATCATGTTATTATTTATAAGTTACAAACTCTA
TTAACACAATAAATTTTCTTATTTATAAAATCTAATTACATTATTCATGT
TTTAATTAAATTTATTATGTTTAACAAAACAAGTCAAATTTAACAATTCT
GAACATAGATTTCTTTTTTACAGTATGCAGAACTTAAACCAGTTCCATGT
GTGACTTATGCTGATGCTCAAACAATAAGGGAGAAATGCGCCACTCCAAT
CCTTAAGCAGGTATATATTTTATATAAATATATGTTAACATTGGTATTCA
TCACAAACCACTCTTTTCTATTTTGCAAATATTTTTTTGTCACATTCTAT
TTTGCAATTTTAAATACTATATAATATCGAATTGGGTAATAATCAGTTTT
GTTGCCTAAAAGCAATGACTCGTGAGATATAAAATCTCAACTACATTTGT
GGAATACTAGAATGAATATTTGGTTTTGCTTAGTAGGTCAGGAATGATGT
TATCAGATACCGATATGGTGATGAACAACACTTGGAAGAGGCACTTAAAC
GAATTTTTCAGTATGGTTTGGTATGTTGCTCTCACTCCCTTTGTACTTTC
ACAAGGTTTAATTCGTTAGGCTTACTTTTGTTGAGTTTACTAATCATTTA
ATCCATTACTTTTGTTGAATTTACTAATCATTTATCCAGTTAGTACAAAT
CTCTCACATTCTCTTTATAGTAAGAGTTCATTGCATTAATCTTGAAGTGA
AAGTGTTCATCTCTTTGGTTACCCTGAGATCTATTAACAACTATAACATT
GTTTTTCTCTTATTGTGCTTTATGCCTCTTCGCTTGGAATGATTATTATA
TCTCGGCAATATGGAATTGAGTAGGTCTTTATTATGTGACAAGAGCACAT
GTGACGAAAATGAAAAATAATAGCTTAATACACTAAACGCCTAGTTGAAT
AGTTATCTCTTCAAAACGCGAGTGTGTTGCCGCTAGCAGTAATGTGTGGG
ATCTAGGCAACTTTGTGTAATTACAATTGATCTAGTCATGTTATAAGTCA
AATATTATTACATGTATTGAGTATAGCATCAACTTAAATATCGATTCATT
AATCATGTTAAATATCACAATCTTATCCCGATTATAATTTAGCTTTAGTT
GTAACATTTATATAAATTACTACAAATACAATTCTTATAGTGTTTCCCAT
CTATCGACTAACACACCATAATTGATTCTTTTTTTTAAACCTCTACTTAG
TTCATTCCGTTTAAGCAGTTGATATATGCTTGTACCGGTCATCAAAACTT
GCTCTTGGAAAGTGAATTTGCCTCAAAATTTTATATTTTATGTAAGACCC
TTCAACATCCTCGACTGACCAATGATAAATTATTAGTTATAGGAGGTGAA
ATTTTGTATTATGCTTAAATATTATCTTCAGTCCAACCCTGTTTTTAGAT
CATTATAGATGCAAACATTGATATACCTTTTTGCTGCTCTCATTAATTAT
TAATAATGTTTAGTGAAAGTGTGTTATACTTTTTAATACAACATGATCAA
TGATGTTTCAAATCAACTCGATTTTTAGATTAATGAGTTTGGAGGTATTT
TTGATTGAGTTGATTAATATATGTATCGACAGACTCAGAGCAAGTCCAAT
GCTAAAACTAGAATTGATGTAGCTATTGCTATAATATGAAATCAAAAAGT
ACATCTTGACGCTAAAATAACTTTCATTCTCCAATGCATGATTTTAAAAT
AGAACCAAAGAGATGTAAAATATGAACACAAGTACAAAAAATTAAATCAA
AATTGTTTTTATATTCATTCCCTCCAAATTCCCACTTACATTGCCCATGT
AGCAATTATAGCTACATCTATACTTGGTTCTGTATGTAGAACCAAGGATA
GCATTTTTCTATTTTAGCATCTCATATAGCATTGCATTGGAATGCTAAGT
TTTATAATTGATGCTATATTATAGAAATAGCACCTCCTATAACATTGCAT
TGGACTTGCTCTCATACATTGAGTCAAGTTCCTTCTTAATATGTTTTATA
TTAACTTCGATGCGAGTCAATTTTCTTTTACCTCTTTAGGTTGAGTTTTA
CCTGGATCAAGTTCGATATGATCATGTTTCATGAATTATGGTTGAATAAT
ATCTTGCTACATATTAAATGAGTAAATAATCAACGATAGAGGAAAGGAAT
CCCTTATATTATCGCAGTATGAAAATGTGGAAAATCTTTTTTTGTGTCTA
TTCATGTGTTTAACATTACCGTCTTTTCTTTATATGTTTAGGGTGGAGGG
ATCGCGCGTAGAAGTGCTCCAACTTTACAAATGATTCGTGAAGAGGTATG
TCTTTATAACATGGTTTAGTTTTGTGGATCTAAAGTATGTGTACCGAATT
TCAAGAATTTATTTTTATGTGATTTAAAAGTTTTGTTAATATTTCAATGT
TGTAAGAATTACAAAATATTTTTGTAATATTCTACTCTCAGTTGACTGAT
ATTCATGTGAAACTCGGAATTAAAATTTAAATTGCACCAGGTTTCAAAAT
ACTGAGATCTCTCCAAAATTCAATATCCTAGGCAAATTGTTAATAATTAT
AAATCCTTATTTTATATATCCGTTTATTAATATTAAACCTTTTTTAATAT
TTGATTTGATATGATATTACCTCGCTACTTGATTATCAAATTGTTAATAA
TTATCAATCCCTATTTTATATATCCGTTTATTAATATTAAACCTTTTTTA
ATATTTGATTTGATATGATATTACCTCGCTACTTGATTATCTGATTATGT
GAAAGAACTTGTTTCATGGCATATATATGACTTGATTCATCATAATTTTT
ACCAATATGTTTGGTACCCCAGGTCACGGAAAATGGTAGATACTGTTTAG
TGTTAGTGTTTGAAGCAAAAGACCTACAATTGTCTGATTTTGAGAAAAGA
CAGGTAACATACAATTTTGATCAATGTTTGCTTATTATTTTCATCGTATG
GAGATAGTCTGCTTATTTCTTCATGATTTGAAAACTTGTAGATTTATTTT
TACATTCTAACATAGACAATTGTAGAACATAATCAGCATATCAGAAATGT
CATTTATGTTGAAATGGTTTCATGTGTAGGCAAAGTTTGCTTCTTTCTTT
GGACCAGATATATCAGCTGAAGTTGGTAAGGACTAAACGCGCTTGTTAAG
AAACTATTTTTTTTTAAATGGTCGTTTATGTCAAACGTTCGTCATTTGAA
TGATACTATACTTCGTATATATCATAAAAATTACTATTAATATTCAATAA
CAAATTGAAAACATATAATTTAAAATAAAAGAAAGAGAATGCTCACGCTA
ATACCTATTACTTATTATGTCTTCAAGATACCTTGGGCATAAGAGTAATG
TTAGTAGGATAATACTATTCAATACATTTTTGTAGAACTAATCCACTAAA
GTTTTGAAATGCAGTTGAGGGAGAAGGGAATTTGTACGAAGTTCGTCTCA
TCTCTGATACAACTTTGTAGTCATCTTTGTAGATTGATGCCTAGAGACGC
TGCTGATCAGTTCCAACATCATTTCATGAAAAAAAATTTAGTCAACACAA
ATCACTTGTAAATTGTTCTATATATGTACTAGAATGCAATTTGTTTAAAA
GTTTTGAACATTATTGTTGTATGCTTTAACCCCCATCATCTCTCATCTTC
ATCAATAACATCA