| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017367110.1, is a part of gene, LOC108199331. |
| The genetic_marker, MK004653 K2097, is adjacent to gene, LOC108199331. |
| 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_017367110.1 | XM_017367110.1 | mRNA | DCARv2_Chr8:22787214..22794822 |
AACAAATATATGGAGTATAAATCTAAAACCCTAATCCCCCTTTTGTCTCT
CATCTCTCTCACTGAGACTGAGCTGAAACAACAATGGCGATGAACATAAT
TTTCAACCGATCTCGTCCTCTTATCCTGAAAACCCTCAAACCCATCTTCT
CCAAGCCCATATCCACCTTCCCATTTCTCTCTCAACAACCCCAACCCCTC
TCCCCTGATCCACCCACTCCGGCCCCACCCTCCCAAACCTCCTCAGCTAC
CTGGACCCACCCCCCTGGGTCCACCCATTCTCTGGTCCCACTTGACTTTC
TGCAGACCCATGTTGTTAAACTTGAGAGGATTGCAGAGTCCTTAGATTTG
GAGTCGATAAAGGAGCTTTTTGCTGATTGGATGACATTGCAGAAATGGCA
TGATATGAAGAAGGTGTTTGAGCATTGGAGCAGTTGTTATGATAAGAATG
GGAAGCTCAATAAGCCTGATGTGGGGTTGTATAATCATTATTTGAGAGCT
AATTTGATGTTGAAAGCGTCGCCTAGTCAGTTGCTTGAGTTGGTTTCTGG
GATGGAAAGCTTAGGGATACACCCGAATACGGCTTCGTTTAATTTGATTC
TCAAGACTATGTATCTGTATAAGGAGGTCGATACTGCTGTCCAATTGCTT
GATAGGTATGTTTCTGTGCATTTCTGTGTTACTTCATTTTTTACTTGGTT
TTTATCTGCAGAATGTATGTGCGTCGAGTTGGTGGAGGCTAATGAATAAT
TGTAATCTTTTTACTTGTTTGTTAATGCAGATAGCTGTTATGTAAATCTT
GATTCTTTTGTTGGTTTATAATTTGGGAATGTGTGGGTTTGGGGTAAGTT
GTTGCAAGGATTGTGAAAAATCATGTCTTTATTAGTGCAAGTAATAACTA
GTACTCTAAATTATAATGTCTTCAATACTATGTAATATGAAATAATTTGA
GTATACCATTGTTATTAATATTGTGTGTAATAGTTACCCATTGTTGAATG
ATAATGTTATTGTTATCGTAAAGAATGATGTGTATTGTACTCATTGTAGT
TATGGCGCTCGACTAGTCAACTAGGCGTTTTCACGGGTTCAACTAATGAG
GTCGACTTGCTAATTATTTAAGAGTCAGTCCACTTGTCTTTAGTGGGTCA
ATAGGTGCAAATTCAGAATAAAATGAATAAAAGATGTATATAACATTGCA
AAGACTTATACTCAGTATGTCTTTTGATGAGGAACAAGAGTAGAGAACTT
TTAGTTATGTTATTGATTAGTTTATATGTATTTAGCTCAAGGAGAATAAA
GCTATTTGTTTACATGTTTTGTTTGGGGCTTTTAGTTTATTAATTATGCA
GGTAATTTAAAATAACCTATCTTCATACGGGCCGTGGTCTATTGCGGTAT
ATCTTAGGGTTTATATTCCCTAAGTAAGTATTGTAATTCCCACATATTTA
ATTAGGCTTGAATTTGATTATGAGAATATTATTGAATATTGAATGGGGTC
TCTTTCAAGGGGGTGCGATCCGCGACTTTTCTCTCCTCTGCGGATGGGAA
ACCCCTGGGTACTGGGTTTTCTTCGGTAAATCGACCCAAATTTTATATTT
TTCCTTGTTTTTGTTATTATTATTAGTGTTCTTTCTACAAGTTCCTTTTC
TGGTGTATATGGAGAAATGGTGTTTTAGGAATCAGGGACACTTCTGTCCC
TGCCATGTACACTTGTTGGACATGGGAGTTCTTCCACGATCCTAATCTTC
AATGTTGTTTTCAGAAATCGTAGTCAAAATTTGTAATAACTAACCACTTC
ACAAAATTAAGTATCAATGTGTATTAGCAAATACGAAAGTAAAGATGCTC
ATGTTCATTTCTTCATGAATGAAACATTTACTTATATTTTCTAAGTTAGA
TGAACAATTTATGCATTTGATTGAATTTACAATCCTATTGTGGTTTGTTA
ATAGGTTTAGTATGTGTAACATGAAATATATATATATATATATATATATA
TATATATATATATATATATATATGTGAAAAGTATATTCATATATTCCGTC
CCCCCTACCCGAACCCCCAATTTGTTATATTTGTCGAATTCATGTATCCC
TGCAATATGCACTGGCGTCCTTGTCCTTGCTTTTAGGTGTTTCCAATGAA
GAAGTATTCAGTAAACAAGTTGTCTTTGCAGGCTGTTAAGAGTGGGAACT
AACAAAAATAATGTGTGCTTCTTGCTTCAATTTCACATGTATATAAATCA
TAAGTTTAAAAACTAAGGTACCACTGCTAAGTGCTAACCCATGTAATAAA
AGTTGAGTTTTAAACATATGATAATTTGTGATCAGTGGAGTGTCATTTAC
CTATTTATCTAAATTTATGCTCTCAGGATGATCGAGTCAGAAAAAGAGAC
AGTAAAAGACAGTGAACAAGATGTAGTCTGTAGGCCTGATGACGAGTCGT
TTGATTTGGTTGTTGGTATGCTACTTCATGAAAATCGGATGGAAGCTGCA
TTTAAGTATATAGATTTAAACTTGAAATCTGGACACAGTATGTCGTCAAA
TGTGTTTTCTGAGTGTGTGTTTAAGTTTATGGCATCCGGAAGTTTGGATA
CACTGGTCTCAGTTATTGAACGGTGCAAGGTAAATGTGATGAAGGCTAGT
GTTAAAGTTGTGGATGATATATCTATGCCTTCTTATTGTTTTCTCACTTA
ATGTTGTGTTTTATTTTTGCTACTAGAAAATGGACCAAAACAAGGCATTA
AGACCAGAATGGAAACTGTGCCTCGATATGCTAGACTGTGCTATGAAAGC
TGATAACAGTGAGCTAGCATATTATGCCCTTGAATTTATGGCTAAGTGGA
TGATTCAGGATGAAAATATGAGACCTCCTCGTTATCTCTCCGTGGAAGAG
GGACTGGTCGTGTCTTTGCTTGCAACTGCTGGTAGAACTTACAGCAAAAA
ACTCCTGGATGCTGCTTGGACAATTCTTAAGCGTTCTCTGCGTAAAAAGA
GGGTAGCCAATGCAGAAACTTACCTTGCGAGGATACATGCCCATGCATCC
CTAGGGACTGAGCATCTGAAGAAGGCATTTGGTGCTCTTCATGAATTTGA
ATCCTTGTATGGAGGTGCTGATAAACAATCCGCAGAAGATCTATTTTCTC
CATTTACTGCCCTCTATCCATTGGTTGTGGCTTGCTCGCACAACGGCTTT
GCAACTTTAGATTCTGTAAGTCTTCACAATCAGTTTCTGTCCCTTGGGAG
CTTAAGGTTTTGCAGGTCTTTACAATTAGTTTTTGTCAGTTACATATGTA
CATAGAGACTAGAGAGAGCATCGTATTCCCCTAAACCTCTCTAAAAATCA
GCCGAAATTGGCCTAGTGGCAAGTCTCGGACTCTTTTCCGAGGTGATCTT
CAACTACTTGGACATCAATCCAGTTTCGAGTAAAATCAGGCGAAACTCGG
ATTTAAAAAGTCCAAAAGAAAAGAGAAAAAAAACTAAACAGCAAATGTGA
TATTTGGACTAATGGTGTATTTTAGTGTTCAACTATCTACAATTATCCTT
AGTTTGAATGGGATTCCAACAAAATTTTGGAGTCAATGATTATTTATGAA
ATTATAGCATGTAGCATATAATTATTATGTCATCATATATTTATTTATAT
GTATATAGGGTTGCACTCCTGAAAGAATAATAAAGACCACTATGATAATA
CTTTATTTTTCATAGAAAATTATTTGTTAAGATTATAATTACATAGTTAT
ACACCAATTAAACTTAATATATGAAATCTAACATCCAAGCTATCCAAGTT
ATTAATATAAGATATTATAGAATCCAGAATGGAATCTAGGACATCTAGGA
CAGAATCCATAATAGAATCATATATATTTTTTGCACAATTAATTTTTACA
TAGAATTATGTTATTTTTAATCCATATTTAATACTATTATTATTCATAAT
AAAAGGTTAATTAGCTTAAAATTAAAATTTTATTCAAGTTTTTGATGAGA
TTCTATATTCAATTCTTAAGTATTCTTCTTTGTTCTTTTTTGAAGGGTGT
TCTTCTTTGAGCAATGGCATATATATATGCTAGTGATCAAATATAAATCA
ATTCTTAAATACAAACTAAAAACCAGTACACAATCACTGTTTACAACAAC
AGGAATCACCAGTATACACTGCGTTAATCATTGTTTTATACAGTAAACTT
AGCAATTTTTATTCTTCATTATTGAGAAAATCTACTTATCTTAATATTTG
GGGGTCAATTATTAATTATCAATTGTAGTTGTGGGACTTGGGAGCTCCAT
GTTGGTAGTTTGTGATGAGAGGAGTTGTGTGATGGTGGTAAGTAGTCGCT
AGTTGTAGTAAGTTAAGGTGGCAAGTGGCGGTGACTATTAGTGATGTATG
CATGGTGACAAGTCATAAAAGGTGTTGGCAATTGGCAGGATGTCCATTAT
TGCATTACGGGGGAAGATGATTAGCATATATGTTTGTATATATATGTATG
TATATATTTATATTTGAGAGATATGTTATATATAAGATGGTGATTTGTGA
TGTACAAAGTAGTCTGTAGTTGAAAATAGTGATAAGAAATTGGTCAGCGA
CTCGTTTTAGTTTGTAGGCTGATTTGGTTTGTATTGGAGTAAGACTCTCT
CTATATATATCTTATTTTTGACCCTGAATACTGATTCTGAATACCCCAAA
TGAATCGCAGTGCTTGTTATTCAGTAGGTTGGCCTAGTTGAACCCAGTTA
TAATTTTGACAGCACTGCTAAAAAGTAAAACCCATCTTAGCCTAAAATAC
AAATTATCACCAGTTCGAGTGGTACAATTTACCAATTACAGTGGTATATT
GATATATCATACTAGTATAAATTAGTTAATCTATTGGATAGTTAATAATG
AGGTGTGATGATCAATTAGTTTATATGTTAAATTTTGTTTTCATTTGAAC
ACAAGCCTCTATTGAGATATATAGCTTTAATTACACATTTAACTTTTTAT
TTTATATTACCAATACTGTTGCTATAGGTCTATAGTATATAATATGTAAA
AATGCTGTGTGTTCGAAACATAATTGTTCCGTCTATCCTATAGCATTTTT
TTTTAATGTTAAGATTGCTATCTAAAGAGATTATAAATTTATAATATACA
ACATCAAGATTACAATTTGAAGAGGATATGAAATAGAATCATTATCTTCA
CGGGGTCAGCCGAACTCTTCAACAGGTAATACCCTGAAATTGTATTAAAT
ATGTGCCTTGTAGAGGAACTCTAGTTCAGTTGGATATTGATTTCTGATAT
ATTTTCTGAAAAAAATATATTTATAGGTGAGTGCTGACCAATGTGTATGG
GAAAACTGTCTGTAGTGCCAACCAAAAATGTTTTGCTCTGCCTATAACTT
GTTAAAGGCCTTTGTAGCGACCAATTGGCAATCTTAGCCATGCTGCATTT
GATGCTTAGATCTTTCACTTTTTTCTAATTGAAAATGTGTGCTTTGAGGT
GGTTTATCCTCTTGATGCCTGGTGCTTCTTATTGTATTGTTCTTTTTCCA
TTTATGAGTTCACAAACTGACTCACATCTAACCTGAAAATTTGATATTAA
TCCAGGTCTATTTTCAGCTGGAGAATTTGAGTAAGGCAAATCCTCCGTAC
AAGTCTATTGCTGCATTAAATTGTATAATCCTTGGTTGTGCAAATATATG
GGATGTTCATCGTGCTTCCGAGACTTTCACAGCAATAAGCACTACGTTTG
GATTGACACCTGATGTTAATTCATACAATGGTCTAATCTGTGCTTATGGC
AAGCTAAATAAGGTAAAAGGTTATTTACTGCCCGCGTACTGCCAATCACC
TCTCATCTTATGCATATAAGCAGAAATCACGCAAACTTGCTTTTTGATTA
GTCTGAGCTCTAATTTCTAATAATTATGTCCCCTAAATGAAATAAACTAG
CATAGAAATGTGCCTCAAGTATAAATATAATGGGGTACATAAGTAGCAAA
ATGTAACTACAGTTAGTATGTTTTGGATTAAAGTGCTTCAATACAAACTT
AAAGCAAGTCCAATCCTAAATGTATAATAGTTATAGCTGTTGCTATAGTG
TGGCACCAAAAAGTGTTTTTTGGTCCAAAAATAGGACTTAGCACTCCAGT
GCCAGTTGCATTTTGCAACCAAATTATTCCAATATTCCAATTTTAACTAA
TTTATTTTATCTGATTCTTCCAGTTTTCTTTTAAGGTACACCAACTTTCA
TTTCTCGTATAGTTGAATGATGTGGCATGATGCAAATCCTTGGTTGCAAA
TTTGCAACAATATTTGCATTCAGAGTTTGCAACTCCTTTGGAATAGTGAT
ATTTTGGCATTTTGTGCAAATTATAGCAATGCAAGTATGCAACCAAGTAC
AACGTTGCATTGGACTTGCTCCAAGTCATTGTGGTCAAATACAGATTTGC
TTGCATGTTTTAACTTGTCGATAAATCTTCTGACTGATATAAATCTTTGT
GACAGAGGAAAGAAGCTCTAGAGCTATTTGAACAGCTTAAAAGTTTAGGT
ATTAAACCAAATGCAATGACATATGCACTTCTTGTTGATGCTCATCTTGT
TGCTAAAGATCCAAAATCTGCACTCTCAATCATAGATGAGATGGTGATTC
CCTTTTCCTCTCTAATATTACATTGGCAAATTGCCCTTTGCTCCGCTTGA
TTATAATTTAAGGTAGTTTGATGTTTTATTCAATAAATTCTATGCTTCAG
GTAATTTCAGGATACACACCAACAAAGGCGATTCTAAAAAAGGTCCGGAG
GCGGTGTATTAGAGAGATGGACTATGAAAGTAATGACCAGGTGGAAGACT
TGGCCAAAAAGTTCGGGATCCGCATGGGTACAGAGACTCGCCGTAATCTA
CTATTTAATCTTCAGTACACTGCTGATTATGTGCAGGAGAGGTGAATCTA
TGATGCACATCAGGATTATATAGTTTTTAGAAGATGAAGGTAAGAGCTTT
GAACTTGTATCATTATATCTGTAGCTCACCTGCATATTTATCTTCTAGTC
TGGCCGCATTTCTGAATATATATAATAGTGTTTGCAAGTTTTTTGAATTG
GTCTTAGGTGGACTCATATCTTTTTTTTTTTTTTGCACGCAAGTACCCTA
GAATTGGGAAGTCATTACAGTTAAATTTTTTATTACTGGATCTTGAGCTT
GTTGGCCTTTGCCCTTGTTAACACTGGTAATTCGTTTCCAGGTTTTTCTT
AAATATCGGAGGCAAAACTTCTGGGGTCTCTTAGTTTCTGAAATCAGATT
TGTTAAAGATGTTCGACACGTCGACTTTGTCAGTACATCTAGTTTTGCTG
GACTGTGAATGGTTGCAGGTTTACTTTAGGATCTTAGATTTTTATGCCTG
ATTGCTAGAATGAACCCTCTACTCTTTGCATCGTGAGGAACAGTTTAGGG
GGGGAACAGTTCAATTTCAAATAATTGCAACATGGGGCTAGGTTGTGACA
TATAGTTCATTTTGTTGCCAGTGAAGAATTGTATTTTTGTTTTGTGTTGG
TCCATATGGATGATTCATTTATATTAGCGATTTAATATGTTGATAAGCTT
ATAGCCAA