| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017393270.1, is a part of gene, LOC108219762. |
| The genetic_marker, MK002801 K0245, is located in gene, LOC108219762. |
| The genetic_marker, MK008759 85036.705, is located in gene, LOC108219762. |
| 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_017393270.1 | XM_017393270.1 | mRNA | DCARv2_Chr5:486190..494154 |
CAATTATAAACTGATAACTATTACTCTCAAGTTCTGACGACAAGAGCCTG
TATGTTCCGAACCCAGGTGTCATGTTCTAACGATCCTTAAAACACACACA
AATTCGCAAACTGAGCAGAAAGAACTCAACTTCAGTTTCATTCCTCACCG
AAACCTAGAAAACGGCCCACAATTCTCCCTTAAATCCACGCAAAACACAC
ACAACATGGCTGATAATCCAACACAATCCTCGGCGAAACAACTACAATCA
TCAAACTCAATCACAATGGACCCGAACATCATTCCTCAACAACAAAACCA
AACTCAAATTACATCCGCTTCAAACCTTAACAACAACAACAACAACATTA
ACTCAATTGATCTCCCTCAACTCACACCCTCAAATCAACAGCAACAACAA
TTCAATTTACAACAACAGCATAGTAATAATAACATGATGGGGCCCACTTC
AAGTTTTCAGATGCAGAGATCACCGTCAATGTCTAGGCTACAGCAACAAC
AGCAGTACAGCCTCGCCGCCGCGGCCCGGCAGCAGGCCGCCGTCGCCGGA
ATTTACGGGCAGATGAGCTTCGGTGGCAATGCTTCTCAGCAACAACAGAA
TAGTAATAATTTAAATAACAATAATCAACAGCAGCAAATGGGTCAAATGG
GTCAAGTGGGTAATGCTAATTTATCGCGGTCCGGGTTAATGGGTGCTCAA
GGTGGAAACTTGCCGATGTTACCTGCTCAGGCAGCTGCTCAGCTCAATTT
GCAGTCACAACTTTTAGCTTCGGTATAAATTGCTTTGTTTTACGGTTTTC
TTTAATTTTTTCGAGTAAAGTCTGTGCCTTTTTTGCTGAGAATTCACTTG
TTTATTACTCGGGATTGTATGATGTTCTATTATTTCCACACCAAATCTGC
CCGAATTTTGTTGATTTAAGAACTGTGCAGTTATGTCTTTGATTTGAAGA
TACTTGGTTGAATTTCAAGTTTCCTGCTATTTTTTTTATTCCAGCAGGCT
CATGTTTTTTGTAAATTGATTTTCCCACTAGTTTTGCCTTCCATGTGATA
TTTTCCGGTGTAACTTTTACACCTTGGCAATCATCTTGATATTCATATTT
TTAGTCTTAAAATGTGTTGTTTGTACCGAGAATTGTGGCGGCATAACTAG
ATTTTGAAAAGGAAAAGAAAAGATCACGCTCAGCCTACTTTTTAGTTGTT
TGTCGTCACTGTTTCTAGATATTACTGAATTCGTCACAATAGACTTATAT
TGCAGTTATATTCTCTGTTATATTATTATATTGAGACTTTGATTGGAAAT
GTATTGTCTCAGACACGTGGAAGATCTGGATTTAGTATAAACTATTCGTC
AGTTGTGTAGCTTATATAGCGGTTGCATTTAATCAATTGAGATTTCAGTT
GTTTTTGTCGTGGTCATAAATTTGCAAAATTCTTTATTTTGACGTTCTGT
TTCTGAGACTATGGAGTTTCAATGCAGCCAAGGCAGAAAACTGGGTTAGC
ACAAGCAGGGACACAATTCCATCCGGGAAATTCTCCTGCACAGTCTTTGC
AGGGAATGCAAGCAATGGGAATGATGGGAAATTTTAACATAGGCTCACAA
ATCAGAGGGAACGGATCAATAGCATACACACAACAGCGTCTGAACCAAGG
ACAAATGAGGCAACAGTTGTCCCAGCAAAATCAACTTAACTCAACACAGG
TGTCTTTTTTGACCTACTATTTTGTTATTTTTTATATATCATAAACTCTC
GCGATCTTCAGTGGAGAAAATGAATAATCATCTTGGCTAAACCGGCATCT
ATCTGAATTTCCTATCATTCCAACTTAATATTGGAATATGGTAGATATAT
AACTGTGACACTATTTTCTGTTAGAAGGTGTTTATTTTTTCAGGCAAGAC
ATTATATTCGGCTCGCTTATCTTCTTGACACTCTTAGGATATGAACTTAA
TAATTGTCTTATGAGCTATTTTATTTCAATGTTGATGTTTGTACTAATGG
CACTTGTAAGCACATGAAATTCTGAAGGGTTCCACTTCATGTATTTTGGT
GGACTTAACAATCAAAAACTCAGTTCTGTGGGGAGACAAAGTGGTCACTA
ACAACACTTTTACTTCTTAATTTCCTATTTCTTTGTATCTGAACATGGTT
TTAAAAAGCTGACAGGATATATTATGATTTAACATCCTGATATTGGTGAT
ACGGTTGTGCAGATAATTGTGGTGATATATATTTCAGCGTTCAATGAGAG
GATAACATAATAAGACACTTCTCGAGGAATTGCCGCATCTGTTATTATCG
TGATAATACTTAGTTTTTCTATTGAGAATATCTAGAATGGTATTAGGTTA
AGTTTCAAGAAGTCTTGATTAGTAATCTGTTTGAACAAAAGTTTTATCCT
CCAAACAACCCTCAGAACAAATTCCTTCTCATTTTGGGATCACTAATCTT
AAATATTTTGGTGGTGCCTATGAGTTTGTGTATCAAAGGATTGTTGATTT
CCAGTCTCGGGTAGTTAATAGGTTAGGATGATGCCTGCCTTATTTATTAT
TTATTGGTGTAGATTTCTTCGAACCCCTCACATATTCTTATTCCTAGTTT
TGGTCTTGTAAATATATATGGTATTCTCTTTTATATATATTCATTCATCT
TGCACTAGATATTAAGAGTTTGTATATAATGACCAACTTACCCAATAGGG
GTGGCAATATCAGACACGACCCGAAACCCGACACGAACCCGACCCAACCC
GAAACCCGATTTACTGAGACAGAAACCCGAAAGTGACCCGAAAATCACCC
GACAGACCCGAAATGGACCCGAAATGACCCGAAACTAGAATTTCATTTGT
AATAACTTCAATTTTTGGTTTTATTCAATTTTAAGTGATTTTAGGTTGAC
CCGAAATCGACCCGATTGCTGACACGAACACGACCCGTTACCCGAAATTG
CCACCCCTATAATACCCAAGTAATAAATAAATGCATTAATGCTCTACAAC
TGGAATATAAGTGAAGATCTTTCGTTAAAAAAAAAAGCAGAATTCTTTAG
TTTTTTTTTTTTGTGTGTGTGTGTGTGTGTGTAAATAGGTAGGAAAGTCA
TATGCGGGAATTTAAGATGCAAATATCACAAAGTAGTTTCTTGTTAATTG
ATTGTGGTGGTTACGCCCAATATCAAAAGGCGAAACGGTACTGTTTTTGC
TGACTACTTCCTACGCGTATCATGCTTTTTTTTCAAAGTTGTAATAAATG
CTATTCTTATCAACGGAATAAAATCTTTATGTAACGCTTATCTGCAGAAA
CTACAGGCACAAAGTCTTGGGAGGACATCCTTTATAAACCCTCAGTTATC
CGGGTTGGCTCAGAATGGGCAACCAGCTTTGATTCAGAATACGCTGTCAC
AACAACAGTGGTTGAAACAGGTTCCGGCAATGTCTGCACCTAACTCACCT
TCATACCGTCTCCAGCATCAGAGGCAGCAACAAGCACTTCTGCAGCAGCA
GCTGGCTTCATCTTCTCAGATGCAGCAAAATTCTAGTGCGTTAAATCCAC
AGCAGTTGTCCCAAATGGTACAACAACAGCAACAGCAATCAGCGGGACAG
CTGCAGCTGCAGCAACAGCAGCAACCAGTACCACCAACACAACAGCAAAT
TTTGCATCATCAACAGCAGTCTCCTAGGATGGCAACACCTGCTGGTCAAA
AATCTTTAAGCCTTACTGGATCACAACCAGATGCTACTGCATCTGGAACA
ACTACGCCAGGTGGGAGTTCAAGCCAAGGGACAGAGGCTAGCAATCAACT
TCTTGGGAAGAGGAGAATACAAGATCTGGTTTCACAGGTTGCCTTTATAT
GCCTCTGTGTCTTTTGCCATGTTAGACAAAGCAAAACTACAGTTTTTAGA
TATTAATTTATTTTTTTGGCTATGTTAAAAAAAATGAAACATCTTAAAAT
TAATCTCCACTCATCAAGTTTAGACTCTTCTAGCAATTACATCGATTGAC
CTTTCCTTTATTCGGGATACGTCCATCTTGACTTGGGAGCGATGAAAGTT
GAAGCTGCAAAGTTTCAAGACTGATTTATAAAGCTTCTATCGTCTTTGAT
TTTCTTATAATTGATTTCGGATGTCATTTGCGTGTAGGTGGACCCACAAG
CAAAGTTGGACCCTGTTGTGGAAGATATGCTTTTGGAGATTGCGGATAAC
TTTATTGATTCGGTAAAGGCTTGATTAATTTTACTTTAGACTTTATCTTA
CACTTGTTTATCTATCGTTGGGGGTGTAAATGAGTCCAATTGTTCGTGAG
TTACTCGAATTGGGCTTGGTAGGTATTCATTTTGGCTCAACAATAATCGA
GCCGATCTCAAGCTCGAGCATTCGAATACTTTTTCGAGCCACTCTCGAGT
TTCAAATTACTCAGCTCATGAGGCTTGTGAGCCTTCGTTTATTTTACTTT
TTATATATTATACATATTAATATATAAGTTATTGAATATTTTAATAAATT
TTACATATTAAGTCTTGTCGAACTCTACTTTAATTTTTCAGTAGAATCAC
ATTGGAGGCTTTGTCAACATCTGGGAAAATCAATTCGAGCTTTTGTGTCA
AGTTCGAACCTCTCGAACTTTTGTCAAGCCAAATTCCAATCTTAAAATTT
GTGGCTCAATTGATCTCGAACTAATTAGACAAGCTAGAATTTGAGGCTCG
GCTTGTTAAATCTATCCCATTTGTAGTGTCATCTATCCCATTTTTAGTGA
CAAGATCTGCAATTTTTGTGAAGTGGGAACTGACAAGTCGTGCAGAGGAC
TAGAGGAGGATGAAACTTGTTTACTATTAACACTTAAGAACTAGCAACTC
GACTAATAAATTTTATATTTAGTATTATTATGTTCAAGGGCTCTACTGTT
ACTGTTAATATGTAATTGTACTTTTAACTGTGGTCCTCTAATAAATTACA
ATATATGTCCACTAGCTTAAACTTATTGGAGGCAATATTTGTGGTTTGTA
TAAAAAGTCGAGAACAAATATCCGGTCCACAAAATTCTTGGGGACTCTAA
TTGGATTTATCAAATATTTTATTTTATTTTAAATAATTAAACACACACGC
ACCCGCCTTGTCTTTGACAAGGTTCATGCCTTGACATCCTGTAAAGGGAG
CGAGAGAGATACAGTTGAACCAAGAGTTCGTTGGTGGATTTATTAGAATT
ACTGCTGTGATATGGTATTATAGAAAGTGCTTTTCTTCAATGGACAGCTG
CACATCTGTATTTGATTAATATTATTTTGCAAGTATAGTCCATCTGAAGG
TCCAGAAAAACCAAAATACATACCAATTTTGTTCTGATTTGTTTTATGCA
TGCTTCTGCTTAAACAAAGTTGTGATAAAAAGTGCATTCCAGCCCCAACA
GGACAGTCAAAAAACTTAAGTTCACATGTTTTTCATTATTGTGGCTTTTG
CAGGTTACTTCATATGCATGCAGTTTGGCAAAGCATCGTAATTCTTCTAC
AGTGGAGTCCAAAGATGTATTGCTACACTTGGGTAGGTGCTGATTATATA
CATCTATGTGTGTATGCTGAGTAGTATTTGACTACTAGATGTCGTTCTCA
ATTCAGAATGGTTATTTCATAGTGTCACTTATATGAAATGTCTCCACCTT
TTCTTTTGTTTTTTTTTTTGGGNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNGGGGGGTTAATGTATCATTTTATGGTT
TTACAATTTATTCTGCTGCAATCTGAGATGAATTAATTTTTTTTCTTAGT
AACTGTCTCTTTAGATTTATATCTAAAGTGTCTGCACAAACATTTATACT
GAGGGTGATCTCATATATATAGTGCTGCTTTTCTGTGTTGTAGTTTTATC
TTTCACATTTCTTGCATTTTTCTTATTGGTGATTTTACTTCCAGATCTAC
TCTAGTTTTTGTCCTTGACTCTAAAAAATCTTTAAATTTTATTTGTATTT
ACCATTTATCTACTAACACATTGGGAATGATGGTTGTCTTGCTCTTGCTC
TACAAATGTGAGTGGGTGTCTGTTGTGTGTATGAGAGAGAGAGAGAGGGA
GAGATAAAATGTTTGTTTTTATCATGCAGTTCTTTTTGTTTTGCGTTTTT
ATAATGAATTTTGAATATATTTTACTCTAGCTTATTGTGGTATGTACTTC
CATAAATATATTCTCATCCTTAACTTTGGCGGTAGTATTGTTTTATTGAT
ATTGGGCCTGTAGCCTTTTAATGTCTCAGAGGTATCTCTAAGATCTCAGT
ATTTTTAATGAAAATCACATGCTTCTAGACTGAAGTTGGGTTATGCAACT
ATTCCATATACTGATGACAACTTGAATACATATCCCATCATTTTTTATGA
TTTCGAAATTACTTGTAAAAAGTAGGAAGTCAACTTGTCCCTCTATCCCC
ACTTGGTACAATACATGCGGATATATCCCATAGAGTAAAAGGTTTGTTTA
GTAAATAATAATACAGGTCTTGCATATATTTAGTTGTAAGTATGTTTGCT
GACTGCAGTTATTGGTAAGAAAGCCTGGATCGCATATACTCTCATGTGGA
CTGACCCTTCATTTTTTACTGTGCAGAAAAGAACTTAGGTTTGTCTATTC
CAGGGTACTCAAGTGAAGAGCGGAAGCACCAAGAAAATGATGTAAGACTT
GAGTTTACTTTAGAGTATCTTTTAGTGGTGCAATAGTGTGCACTGTGCAA
TAGTTAGTTTTTTCATCACCATGTAGGAACACTAAAAATTCAAAAGATTT
AGGCAACTACCTTCTGCATATACTTTGGTGCTAATGTTTATACTTTCAAA
CTTTTGTCGGAGAAGTAGTTATCGTAATTGATTGTAAATATTATTTTGCT
TCGTTGATTGACTAATATAAAAGGTAAACTTGCTTGTAAACTGTGTGCAA
TTCTGCTGTATTCATTATGCTTCTTTTGACATGCTCTTTTTGCATCTCAT
TTCTAATTCCTTTATTGAGTCACTATATTAGAATGTTAGGCAATTCCATT
TGGACACTGTATGCAATTTAGTGTGAGTTCAAAAAGATTATAGCAAGGAA
GCAGTATTGATTTTATGCTTGATTATACTTGCAGTCATCAAGTCATGCCC
ACAAAACTCGACTCGATAAGGTAAACAGGATATCTTTTTATCTTCACACT
GCTATTTAACTGTTTTATTCTCTCTTTTGAATATATTACTTGCTGCAAAA
CTATTAACCCAGATATGCTCTATTACTCAGATACGCTCGTTAATGGAATC
CTCAAACTCCGACACAATCAATGCTAACGAGGTGACTGGACAGGGGACTG
GCAACTCTGTGGGTGCCAACCACCTGATGAGGCCTTCTAGTTCAGATCAG
CTGGTTTCTCAAGTGCAGCATCAGATAAAAAGGTTCAATTTTAACACATC
TGTTTTCATAGTCATATTCTTATAGTAAATAACTAGATTTTCTAATGTTA
CATTAGAAGGGGTAATTGAGCTTCTTATTCTCTTAGAGCTATTATTTTTT
ATACGTTTTAAGTGTTGAATATCTGTTGCAGGTTCGGTTCGGTTGACGAG
TGAAGGAACTGGGTGGTTGGCTGCATAAAGTGTTTGACAATGGCGGCTTT
GAGCAATTTGACAGCTCTTGCTCAGTTGTAGAATTTTAATAATACCTTAG
TTGAGCTGATACTTGAGAAGTGAAAGTGTAATTGCCTGGATTTGGGTGCT
AAAGTAACAGGGAGCTTAGTCTATGCTCCTGTAGATATAAAGTATAAAGT
TGTGGGTTTTTATAGTTATAATTTGCCTTTTCGGACTTATGATCATACAA
GATTGCCATGCCAA