| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017387870.1, is a part of gene, LOC108215376. |
| The genetic_marker, MK006482 K3926, is located in gene, LOC108215376. |
| The mRNA, XM_017387869.1, is a part of gene, LOC108215376. |
| 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_017387870.1 | XM_017387870.1 | mRNA | DCARv2_Chr3:17060376..17068738 |
| XM_017387869.1 | XM_017387869.1 | mRNA | DCARv2_Chr3:17061236..17068738 |
TCAATTGATAAGTGGAGATCATTGTATTCCACAAGAGAGCATTGTATTCC
AACTTGTCCTTTCCTATTTCAATTTTTTCTCCCTCCAATCTTCAGAGATT
CATTTCACTGGCGGTTTAATTCACGGCGGCGCGACCGTTGAACCCTTGCT
TCTCAGCGCCTCTGGCCGATTAGATTCTAATTAGCAATGACTATTTTCTG
CTGATCAAGATTTAGGTACTCTCTCCCTCCCTCCCTCCCTCGCTCTCTCT
CTCTCTCTCTCTCTCATTTATGTATTTATGCAGTGTCTTCTGATCTGCTG
TACCTGGAGATTGTTATGACTTATGCACATCTAATTTGACCTGTTCAACT
TGCTATTTAGTCCTTCAACTACACTTCCAAAAACAGATTATTATATATGC
TGTATAATTCCTTATATATATGAAATTATGGCTCAAGCTGCTTTACCTGC
AAATTTCTATCTTGCTTCTGCCTGTCCAGTTTGAATATTTTAGTTTCATA
ATATTTGCTGCTATAACTGGATCAGATAGGTACTTTACACTAAATTTTAC
TATCTTCGTTTTATTAAAAATCTTGAGCCTCTCAACATATACTTTACATG
TTAGATCATCGCAAAACAGTTCTACTTTTCAAATACCTACTGTCACATAC
CTAGTTTAAGTGTACAATTTTTTTTATATTGTTTATTAACTCCACAACGA
GATATAGTTAACAAGAGTTGGCGAGTTGCTACTATAATACGATTTGATTT
ATATTTCAGGATTCCTCCTTTTTATGTCGTCACACATATTTAAGTTACTT
TAGTACAGATTTAGGCATATTGAAGAAAGTAATTTGAAGTTTTGTAATGT
TTTGTTATGTATGTACAGCCTATCATTTGCGATGAAGACTCTTGGTAGTG
AAGAGTTTGATGTAGAAACTGGAGAATTTGATAACGAAAGAGAAAAGTTG
ATACGGAGTAGCAGAGTAGTTCAGATAAACAATCAGGCGTTGTTATCTGG
TTTAGCGTATTGTCTATCGTCATGTAGTATGATACTGGTTAACAAGTATG
TTCTCTCCAGCTACGATTTCAGTGCTGGAATATCTTTGATGCTTTACCAG
GTTACGTCTAATTGTTTAGTTTTTAATTAAGCTCAAAGAAATTCCATACG
CTAAAAGCACTCCATATGCTTAAAAAGTTTCCTTGTTTCCTGCAGAACTT
TGTTTCAGTATTAATTGTGTCTATGCTGAGTACCCTTGGCGTAATATCAA
CAGAACCATTGACGTGGAGATTGATCAAGGTGTGGTTGCCTGTAAATGTA
ATATTTGTTGGGATGCTAGTCACAAGTATGTTTAGGTATGAATTTTCTCT
TTCTTTCCACTTACCAATAATAATTTTCAGAGTTTGCCATTAAAAAATCT
TTATATTTTGGGCGAGTTTTAAGATGAATATTTCCCGTCAGATCAGAATG
AATAAAACCTTGAATTTTGGTCATCAATCAGACACTTAAAAATATATAAG
GTTAATGTATGAGTAAAGGGATGGTTCACTTCATGTTGAATCTGTTTTGA
GTTGGATGCCTTGATTGGATATCCTTGCTCCTATGGAATGCCTACTGGCT
AACATCCTACACATCACCCAAGCATATATGTCCACACTGTCATGTGAAAA
ACGTGCTGCAAGTGAGGAAGAGGGGGGCTGTGTTATTCAGATTATTAATT
CTATGCAGTTATGAAGCATTGTGGAATATAAGCCTAGTAGAATCTCCGCT
CGTCACCATTTCTGTTGAGTTTGCTGCTTCATTTTTACAATAACACTTCA
TATATTCCCTAATTGTAAGACCTACTTATAACTTATACTAGAAGCCTTGC
ATTGTATTATATCCAAGTCCCTACACCTGTTTTTTCTGTACCATATTTGA
GGCATATCTAAACGTTGCTGCCTTGCTGGAACCCTGAAATTACTGTCATC
CTTTATAACTTCCAGAATATATGTTTTTGACAAGAATTTGTATACAGAGC
ATTCTGGATCTCTACCATGTCTTACTAGAAAAATGATCATCTTCAATATT
GAAGCAGCAAAATGATTAAAGTTTAAATTATAATAATAAATTTCACTAGG
TTGTGCACACTCTAGGTTTCTCTTCTTTAATAAAGTTTGGTGTTCTGCCA
CTAAGTCAATTTTCTTTTCTTTGCTAATTAAGAGTCACGTTTATATGAAT
TAACAAAATATATGTTTCACCCTCTCCTTTCCCTAATTTCATGTGAATTC
AATACAGGATATGTGATGCATAACTGATGGATATTAGATAGAAAAACAGG
TATAATAATGAACTTAGTGGATAAACCGCAGAAACTCACTATCCCAAGGC
TTTTGCCCCCACGGAAGGGATAAAATTCACAGATTGCAACCCATGATAGA
GATGCAATTCGATATTCAACAATATTTCGATAATCAAGTCTAATTATATT
GTGGGGCTTACAGTCCTTATATAGCAATACAAAACCCTAATAATAACCTA
ATGGACCGTACAATTAGCTTTATTATAAATAGACTACTTATTTAATAAGC
CCCTAACCCTGCATATAACACATATAGATAATTACATTATTTGACTCTGC
ACTAAAAGTTGAACTAATTAAAAACACAACATTAATTCCCTATTTTCGTT
CTCCATCAATCTCCCATTGTTAGAGAAAACTCGACCATGATTTTTGCGGA
AGGCAAGAATCATGCAAAACTGAACTACAATGAAGAACAATTTTATGCTC
TCCTTGAACATCTGCTCAGGTGCAAAATACTCAGAAAACTAACAGCCAAA
AAACGTTTGAGGTGCGAAATATTCTGAAAACCGACTACCAAGTGAAGGAG
GTGCAGCCAACTATTCTGGAATGATGAAATAGTGATGTGAACAGAACCGT
CATGAACAGTAACTCCAGCAATGAATAGTGAATTCGATGAACATATTTTT
TTTTTTTCCAAAATCAAAGATCGCCCAACAACTAAAAAAATTGATGGAGA
AATCTAAGATGTGATACCATTTGCTGCAGGACAAGATGTAGAATGATGGA
CATTAGATAGAGAAACAAGAATATTAATAATTTGGGTGGATTAAAGGCAG
AAAACCCTCTAGTCCTAGTGTTTCGCACTGGGGAAACGGATTGCAACCCA
TGAAAGATACTCAATTCAATATTCAATAGTATCTCGAATCTCGATAATCA
AGTCTAATTACAATGTGAATGCCAATATAGGTATAGAAAATCCTAACAAC
ATAATCAAGTCTAATGATCATATGGGGTTACTATGCTTATATAGGAATAG
AAAATCCTAGTATAACCTAATGGACTAAGGCCCACTTTATTATAGATAAA
CTACTTAATAAACTCCTGACCCACTTATAAAACATATAAAGAAACACATA
TTCTATCTTTACACTATATATACTTGAACTAACTAAAAAAATATACATCA
ATCCCTTATTTTCGTTCCCCATGAATATGCCATAATAATGGATTTTTAAT
ATTAAACTTGATATTAGACGCTTTTGTACTACTATCATTGAAGTGGATAA
CATATATCGAATTTTTGATGCAATGTTTTCAGCGGATACATACGCTCCGT
ATGCTTATGAATTTGTTTGTTTGGTCTTATTAAACTAGTTGTGTTGAATT
TTTCTCATAGTTGATCTTAATGTTTTGCAGTCTAAGGTACATTAATGTCG
CCATGGTTACAGTTCTGAAGAATGTTACAAATGTAATAACAGCAGTTGGT
GAAATGTATCTGTTTAGTAAGCACCATGACAACAGAGTTTGGGTTGCGCT
GTTTTTAATGGTATGTTACCTTTCGAGATTATTGTCTTATGACTGTGATT
CTCTCTCCTTTTTTTGGGGTGGGGTGGGGGGTGGTTTGCGTTTCTGGGAT
TGCTTTGTTCAGGCTTACTTTCTGAGTCCACATTAAAAAAGCTGTGCTCG
GTATAATGCTGCACTCGCAAATGATTAGTCACGTGATCAGGTCATTGAGA
TAACTACTGGATAACTAGAGTTGAATGATTTAGTTTTTCAAGATGGTGTA
ATGTTTCCGAATTATTTTCAAGCCCAATTTTGTTTTAGATAGGAAATCTG
CAATGTGATTAATTAACTGTTTGCTGTGTTTTTTTCCCTAGGGTAAAACA
GATGTTAAGTTAAAATTGTTTTTTTTTGCATTTTGCAGATTATTTCAGCA
ATCTCTGGTGGTTTTACTGATCTATCTTTTCATGCTATTGGCTATACGTG
GCAGATTATTAATTGTTTCCTGACAGCATCATATTCTGTATGTGTTTTAT
TTATATCATACTATGTTGGTTTGTCCCAATTCACCCTGAATCTTACTAAC
AGTCACTTCTATTTCTTTCTTCTTTTTTCACTGAATTTCCTCATTCAGGC
TTTTGGCTTTGGTTATTGCCCGTGGTACTAGTGTTTACATTGAGTCACTG
GATAGTGGATACATGTTCTTTTAGTTTTTTGCCAGTGTCAAGTGTTCTTT
ACTGTACTTACTTTCTCGTGCTCCTCCTGATCTCACTCTAGGATATATTC
TTGGAGAGATTAAGCAAGTCATTCTATACACTGAGAAGTACAGAAGACAA
CCATGTGTACACTAAAAATTACTTAAAAGTTATAGAAGCAGGCCATTTAA
CGTACACCCTGATGTTTTACTGTACACCAACGTATCAGACTCCAGTATGG
CAGTATGTACCTAGTAAGAGATGGCATAATACACAATGATACAAGTAGAC
TCTGGCCATTCTGGTATTTTCAGTTACCGTGTCCAAAGATATTTTCACAT
ATCATATATAACATGTCAATTCAGCAGAACAATTTTCTTTTTTGCCAAAA
TAATTACCTATTTTTAAAGTGCTGGCTTTTCTAGTTTTTCTTTGATTTCA
ACCGGAAAATTAACAAATGTCATAATCTAATAATAGTCTCATGATAACAT
TAACACCAAATGTTAAAGTACTGTATTATTTATATATTTAACTTTTATAT
ATATGAGGGTAGAGATATAGAAAGATTTCAGGTCCTTGAGTACAGATTGT
TCGTCGAAATTGAAAGATGCACTCCTATTGTTTTCTAATTAGTTTTTCCC
GCCAATCATATGCAGCCAAGTAGCATCTTCTGGATCTTCATAATGGAACC
TTTGCTTTGAACCACTTATAACTAATTAAATACCCGCTTGTCAAACTTTT
TTAGTAATTCCTTTTGGGATTCTTTTGTCCCTGATAGTTATCAGTATATA
AACTAGATTTTGATGATTCTTTATTTTTCTAATATAACACCTGCCTGAAT
TTTACCTTTTCTATATCGATTTGTGATGCAGTTGACACTGCGTAGGGTTA
TGGATACAGCAAAAGTAGTGACAAAGTCCGGAAACTTGAATGAGTTTTCG
ATGGTTTTGCTAAATAACACCCTCTCTTTGCCCCTCGGTTTACTTCTTAT
ATTTGTGTTCAATGAGGTGGACTATCTTGCTACGACGTGAGTTTTTCTGT
GCAGCATCCTATAAAATTAATAAGAAAGCTATGCATGTAATGTAGAAGTC
CCATAAATATATTGATGCTTTTTTTTTTGACTACCAATAAATATATTGCT
TCAAGAAAAAACATATTTGATTATAATAATAATGAGTATATCTTTGTATA
ATTGTGCATAAATCTTCATTGTACTATGGCTTAATATGTTGAAGGTTTAT
AGAGATCAAAGCCATCCAGCTAATTTATATCCATAGTGCTAGTCGAAGTT
CTGTATAATCTTTCGTTACACTGATATGTCAATTCAAGCTTTATCTGCAT
GTTTTTCATAAAATTGTTACGAAATGCACATTACTGCATAAAAGCAAAAT
ATTTACAAACCTTCAGGCACTATTAACCATTCCTTCTCCGATGTGCACTG
TTATAAAAGGGTAACAAGGCAGCATTTGTGATTACAGATTTTGAAATTTG
TTTTATAGCTTTCTTAAAATTAAGATGCTTGCACTTGGTCTTTTGTTGTA
TAGTATATACTTCAAAATTTCTTCTGGTTGGAAATACACTTATCTAAAGG
TTCCACTTCACCTTAATAACATACTCTGCCCTTGCCCTACTTTTTGTTTT
TAACAATCGTGGTGGTCTTTTCCTGACATTTGTTTATTGTCACCAGCATT
TGTAATAATGTGATTAGCTGAAACTCATATGTGTTTGTGATAACTGTCAG
ACCACTTCTGAGGCTACCCACGTTCTGGTTGGTGATAACTTTAAGTGGAT
TTTTGGGTTTAGCGATCAGCTTCACCTCTATGTGGTTTCTTCATCAGACA
AGTGCTACTACCTACAGGTTAGAAATTTTCATTAGGTTTATATAAGAGTG
GTTGTCTCTATTTTTGACTCAGATTTCGGTTAAATCATATACTATGGTTT
ATACTTCCTACTTTTCAATTTGATATTAAGTTCTGATCTTTTGCTTGCTG
AACCTTTTCTTCACCTGAATTACTATGGATTTTTAATCTACTTATTTTCA
TTTATCTCATCCAACCTTAGTAACTTCCAAAAAAAAAAAATTCAGACCTA
TCTATGCTAGAGGAACCATATATTCTGCTTGCACTCTTATTAGAAATGAT
GCTTCACAATACTCTAAAGAAATAGTAAACGATAAGAACCGGTTTCTCAC
AGAGAGAGCCCCTATATATATATATATATATATATATATATATATATATA
TATATATATATAAATATGCCTGTTTTGTTTCATTTAATTTTTAGTAGAGT
GAGTGAAGTTTATGTTATTAAATTATAATCACTATTCAGTAGGTTGTACT
TTGTAGTATTATATACTTAAATTTTTATACAAAAAGCCATCTGTACAAAA
GTCATCTATGTTGATTTACTTTACAAATGTAATCTACATGATGCATATGA
TATGGAAGGTTTAATTACAATCGAATTCATACACTTATGGACAACAACTT
TAAGAGAAAGTTGTACCTCTATACATTTGGAAAAAGCTGGTTTTCGGCTT
TTGCGGGAAGCAACTACTGTTTTCTTTCAGTATCAAACCTCACCAAAAAC
ATCGTGATTTATATTATACCGAAATTGATGCGCGCACTATAGTACCAAAC
AATTATCTGATTTTTGCAATAATTTTTCTTACATCACATCACTTTTTGAA
CAAAAATTCCAAACAAAGCCTTAGTTGAGGGATAAGATTAATCAAATAAA
TGTTTGTTTGGTTTAACATGAAAAATATGCATTTTATAAATTATTGTTTT
TTAGTCAAATGTATATACTCTTCTTTTTTGTGAGTAATCATAATTTAGGT
GACCCTTCTATGCTGTTTTTACTTTATTTGCAAGAAATTATATAGAATTT
GTGGGGGAATATATAATTATCGAGTGTATTCCTAATTCTGTTATTTCAGT
AAAAATCCACCTGTTACTTAGGTGGAATTAGCATTTCTGTGGTTCAGGTT
TGATCTAGTTGTAGATTAGCTAGTAGCTGATGAAGCGATGAACTTGTTTC
TGATTAGAGAATTTCATACATTTCTTGTAATTAAAATTTAGTATTACACA
GAATACCTCTGGTTCACATTATACAAGGTGTTGATGGTTTGTATTTGGCT
ATAACTGGTGTTTGAGATAAATGAAACCTGAATATTCTTAAAGAAACAGT
AGAACAACATAGAGGACTTCATAGTGGTATTATAAGGTGCAAGTATCACG
GGGCAAGAATTTTTTTTTGTTGAAGCTCTTTCTGTTTTGTAATTGTGAAG
ACTTGTAGATGATTCATCTTAATCTTAAGAAGGTTCTTTTCATTTTGCAG
TCTTGTGGGGTCACTAAATAAGATACCCCTTTCAGTCGCTGGAATCCTTC
TGTTTAAAGTCCCAACCAGTCTTGAGAATTCCGCAAGCATATTATTTGGT
AAGCTCCATTTCCAAGAATAATCTTTTTTCCATCTGAGCTTACCAAACCA
TAAGCGTCGATTGTAATTTGCAGGTCTTGTTGCTGGTGTCTTCTTTGCCA
GAGCTAAAGTGCGGGAGAGATCACAGTCTTAATATGTTGGTTGCTGCTAC
AATATTTTTACCGCCCTCAGCTAAGAACAAGCAGCCACATTTATCTGCTT
TGTGTTACGTATCACAGTACTATCATGGCTCTTAGAAGCAGCAAAAGGTT
AAGGAAATCGGAAAGAATTATGGAGAAGTGTTTTTTGTAGGATTCTTTTC
CCCATTGATTTTCCTAGTTCCTAGAAGAGAAGGTGAGCTTATCTGTATAT
GTTTGTGTTGTAATGTAATATATAGAAAGAACTGGTGCTATTCTAGCTCC
TGATCATTCACAGATACTGTTAACCACTAGTCAGTGATTTTATTTTACCG
TTATTTGGAGCA