| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017387279.1, is a part of gene, LOC108214989. |
| The genetic_marker, MK005717 K3161, is located in gene, LOC108214989. |
| The mRNA, XM_017387280.1, is a part of gene, LOC108214989. |
| 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_017387279.1 | XM_017387279.1 | mRNA | DCARv2_Chr3:35444608..35453337 |
| XM_017387280.1 | XM_017387280.1 | mRNA | DCARv2_Chr3:35444764..35453337 |
TGAACCGCTTGAGAATCATAGCCCACCTTTTACAATTTTCCACTCTTCAT
TTTCAATCCAAATTCAAATCTTTCTACTCTTCAAACAATTTATTGACAAA
CCCTCTTTTCTTCAACTGAAAAAAATAAAAAGATGGGATTTTTAACCCTC
TCTGTTGGGTTCTTTCTTGGTGTGCTTGTGATTATTTCTCTTGAATTTCT
GGGTTTGTATTTCTTGGTAGTAAGATTGAGTAAAAAGAAAGTTAAAGATG
AAGAAACAAAGCACACATCTCGAGAAGTTCATGGAGATCACTTGGATCTT
TCTTACCCCAGTAAGCAGGTTTTGATCTTTGGACCCTTTTGATTATAGTC
TTTATATTTTTTGTATGAGTGTACATATATTTAAAGATTGTTATTTTAGT
AAAAGAAATGCTGATTAAGATGGGTTGCAAGAATGTATGTCTACTGTTTT
TGTGTGTGGAATGATTATGTGTATGTGTTTTACCCAATGTTATGTTGATT
TCGTGAAGGAATGCTGATTGAAATGGTTATCTGTGTTTTGCTGATTGGTA
TAAACCTCACTACACACTAATTACTATATATATATCTGTAATATAGAGTA
ATTCAATTCGTGCTGTCCTCCGTGATCAGTCTCATCCGTGTAAGAAAGGC
ATAATTAGTTCCACAAATCTAACTGTGCATTGACCTTAGTAAGTGCCCGT
TCATGGTGTCAAAATTGGGATGTTCTAGTATGCCTATGGGTTCGTCAAGG
ATTAAGAATGCATATGAACTCTATATGGAATTAAAACAATCCATAAATTT
GAAAGTTCTTGCAGAATCCATGGATTGTTATTAATCCAATAAAATTTCAG
CCTCTTTGCCATAATAGCATCAGCTTTTGTTAACTATATAATAATAAGTC
AAAGGAAGATACCAACGGTTTGAATCTTTAGTGTTTAAAATTACGTTGCA
AAAAGAAAAATAATAGTTAATACCAACCACCAATTTTCTGTTTTCTATTT
ATAATATCATTTTGAGATAAAAGAAGGTTGCTGCAAACACATTAAGTGCA
TTGATTTTGGCAAGCATGTTTTTGGAGTCATGAGGTAGTCATAGAAAGGT
GATAACCAAGTGGGCAATCGGAAGGTATTCTGATACATATTCTAAGATTA
TAAATCTATGTGCTTGGTTCTTGTCATCAATGTTCACAATATTTAATTGA
GTGTAGTATATTGTAAAACATTAAGCTGCCTTAAGTGTCGTTTACAATTT
CACATGATACAACTTTAGTTGTAATGTTCTAGGTTCGTGTTTCATTGACA
GTTACTTTACTATACATCAGGGACCAGTGTGGATTCTAGATTTAGAAAAG
GTCCCAAAGAACTGGATAAGTGACAAAGGATCACGAGAACAGAAAAGAAA
GATTGATGTCCTGGAAGTCAACCCTGTCCGCAAATATGCTAATCTCAAAG
ATCAGGCACTTAAAATAACAGAACCAGATGGCTCGAGTACAGTAATCCAG
TTGAAGAACTGCAGCATTGCAGCTGTGTCTGCTACAAACTTACCTTCAAG
AAAATGGTAATGTACTTTGCACTCTACAATGACCTAGTGACTAGTTGTTT
ACCTGTTAACCCTTTTGATTTCGCTTACATACATGTGTGTTTGTGTGGTG
GTGGTGATTTGTGTGTGTGTGTGTGTGGNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCTTGTT
GCTTCGTGTTAATGATACAACAATATATTTTTTAATTTTTCTATCAGTTC
TTGTATTTCGCAAAAGTGTTGAAGTAAGGCTCTACAGAAATTCCTTTGAC
TTAGTTCAACTTCAAGATCATTTGATTGTACTTTTTATTGTATGTAAACC
TTCTATATATTGGCCTCACAGTCTAATTTATATGATCCTGTGCCAGCTTT
TATGTTGTGTATTTCTGAACGACCAGTTTTACTTGGAGCTGTGTCTGGGT
AATTGTGGATGGGCATATGGGTATGTATTAGGTATTTTTTGATTTTGCTA
CCTCTCTTTGGTGGTTATTTAGGCCCTTAAATCAGTTGGATTTTAACACA
GGAATTACAGATGCCTCAAATTAAAGGTCATTTTCGATTATTTTTTTTGC
ACATTTGTTTAGAATCCTTCCTGGTTCAGTAATTATATTCTCCAATTAGA
GCTTCAAGTTTTAGAACACGTGCAGAAAACAGTCATTTTTATTTGTCTTA
GGTATGATCTCTTTTGTATAGTCAGCTGGGGTGGATTCATGTAACAGGTT
CTGAATATTGCGGACGAGAATGGAGAAGACAAGGACTGTTCCTGCATTCT
CCTTTGAAATATTCATCTTTTGGAATTTTACCTATTTGGCATTATATTAG
GCTTTGAGTCTCTTAAAAGGGTAGTATGATTTCAGTGGTAGATATATACT
AATGATCTGCAGACTGCACATACTCTGTTTGATTTACACTAGTTTATTTC
ATTTTTTTTGTACTGTTTTGCATGTTGTACTGCTATTTTACCCGAATTCG
GGTATGGGTGTCGGATACGGGTACAGATCCAAGAGTCAGATTCGTGGTTT
TAGGATAAATAGGATTCCTGGACATTGCCCGAAATTAGACCTGGGTACGG
GGTTTGGCACTTAAGCTCCACACAAGTTAAAGTTTATATAGACTGATCTA
TTATACATAAATCACGTACACTAATCATGTATGTTAAATGGTAGCATAAA
ATTAATAGAATAACATAAAATAGGTCATTCATGGACCTTGATCTCTATAA
AAAAGTTGAAACAAGACCTAATTTTTCATTTTGACCTGGGATGCTACAAG
GTGAAGTGTCCGGTTGTAATAAGTAGAATCCGACTCAGATCCCATAACCA
CACCCATGTCATTTCTGGTGGACCCAGTTATAGGCACAGAAATAAAGAGT
CCGGGTAACATAGTGTCGTGTCCAGTGGACATGGGTATAGGCACAAAAAT
GGAGAGACCGGGTAACATAGACTGCTACTATATGTTTGTTTGATGTTACT
TTGCCTTTAGGTCTAATTTTTTTGGGTTGTCCATTTAAGGGGGTTGCCAA
TCACAACCTGATCTCTGACAATGGCCAATTATCAAGACAGATAAATTAAT
AATTGCTCTAATGTCTATAATTTGTTAATAGGGCTAAGAAGTACCCGATT
AAAGTGGAGACTGAGACTTCAGCAATATACAATGGTAGTAAAAGCTTATA
CATTTATTTGGAGACATCTGTTGAAAAGGAATCGTGGAGTAAAGCACTCC
GTATCTCCTCTTGTAGTACCAACAAAAAACTCAAATCTTTTGTACAGCTG
CGTACGGACTTTCAAAATTACTTGACAGCTCTAAACACCGAACATCCTTC
ACTAATGAAACCAACTACGGGTTTCAATGCCGAGTCAATAGAAAAGTCTA
TAAAGATTGACGGCTCCTCATCGAAGGTTCGCCACTTCCTAAAAAAACTT
GCGAAGAAAACTTCTAAGAGTGGTTCAGATTATAAGGCAAACTCCGAGCT
AGGACGTGGAGGGAAAAATGTGAATGAGAAATCTCGTTTACTTCAGGAGT
CTGCAGCAAAATTCTTTGTAAAGCCTACTGCAGTTGGAAAAGTACTCAAC
TCTTTGGATGAAAATGCGGAAGCAGCAAGCATTACTCGTGCAGGTAGCAC
AAGTAGTGTCTCTGTCATTTCTGAAGCAGATTCTGATGATAGGCTTTTTA
GCGATGAAGGGACGCTTTGTTGGAATTTATTATTATCACGATTATTCTTC
GATGCAAAGAGCAACTCGAGGATAAAAAGCTTTGCACAAGCAAGAATTCA
GGTATGATTCGTGTAGCAGCTTTTCAATTGTAACCTTAAAATGTTTCTAA
AGCATGTTTGCAATTTTGCAGCTTAAACATGAAGTATTTTGTTTGCTAAG
ATAACTTACACTTGCTCTTTTAACTCTATTCACGTTTTTTGTTTTCAATT
GAATTACTAATAGAAGTCTAGTCAATAAATGGTCTGGGAGTTAGACACTT
TCTATGGGTCAGAGATTGGATGGACTATATCATAGAGATATCTTTCCTTT
CTTGTTGTTCTTGCAAAAAGTAGTTATGTGCACAAATATCTCTGATACTA
ATTCTCTATTCTGGCAGAGATCTTTGTCGAATATTAGAACCCCCAGCTAC
ATTGGTGAAGTTATGTGCACTGGTGTACATCTTGGGAACCTTCCTCCATA
CATTCATGGCATGAGGGTTCTTCCATCAGATATGAATGACATCATGGCAT
TAGAACTCGACATTGAATATCGTGGTGGTGCAGTGTTAGATATTGAAACA
AGGGTTGAAGTTTGTGGTATTGATATATCAGAAAACATGACTTCAAATTT
AGACCCGACCTCTGTGGATGAAGTCACATCAGATCTTTTAGAAGGTATTG
AGCACTATGGGAACCAGTTTAAGCTCTCTAAAGGGGAAGCCGATAAAACG
GAGGCTAGGAATGAGGGCAACCCTAAATTTGGTTCGTCTATGATCTGTTT
TTTTCGACTCCTGTGATTCCATGTATGCATTATTTCCATGCTAAGATTAT
TTATGAGATAATATATAGACTGCAAGTGGTGGGGCAAAACGAGTCTACCC
AACCCAAAATAAGTTAATTAAACAAACAACACTAACAAGAAAGTAACTGT
ACTATCTCTATAGAGATCACAAGCATGAAGGCCCTGTAATGCCATCCATT
CAAAACACCGAGATAAGCTGAAGAAATATTTATAGTATGTTGTGATGTGA
TTCTATATATCTATTCATAAAAATCAGTATTCAGTAGTAAGTATATGAAT
AGCATAGGGAATATTATAGGCTGTAGCAGAATGCAAGATTTCTTTCACCG
CATATGTGAAATTTAGAAATGTCTCGTGAGAAGTATGAGGTCATCATAGC
ATCTAAAATCGGAAAACAAGATCAATACTATAGATTGAACTTCCTCTTTG
TTTTGAGATTAGCTCACTCTTTTCTAGTTATGATCAGTATGACACTGTTT
AGGAGTTAGAGGTTTGAGTGATGTTAGAGGCTTGACCAAGAGAATCTAAT
TTTGGTGCTTGGTAGTTAGCGGATTGAAATAGCGGTTTGGATCAAAAAGC
TACTTTGTGGAGTTTTTTAAGTAGAGGCTTGATATGTGTCTATTTAAGAT
GCAAAAAAACTAATTAAACAGCTATTTACCAAACAGTTTCACACAAACAG
CTAATTCAATCTGCTAGTCAAAGCAACTACCGTAATTAGCTAGTCAAAGC
AGCTCATTCACTCCGCGCCAAACCCCAAACAGGGCCTATGTTACTCTGAC
TTAGGGACAAACTATCGGATACAACATATACCTGAATGTCGGACTCAAAA
ATATTAGAATTCGACAAGGACACTGTCTTGTATTTTGGACATGGGTATAA
GACATGACATAATACATTAATAAACAAGCTTGATAAGTAGATAAATTTTT
AAAAAGTAGCTATCAAGTTCTGATGAAACAAAATTATGTAAGGAACTTTG
CAAGTAGGGATCTTCTAGGCCTTTTTTTTTTTTTTTTTGCTTCTTTTTAT
TATGGTTTGCATTATATATTCAACACACATGTGGTCTGTTAGTTGGTCAA
AGTGTCCACATTCAGTCAAAGGATCCAACACGGAATAAGTGTCCAAGTGT
CAGACATAGGTACGAGTACCTAAATAGAAGGGTCGGAGTAACATAATGTA
TCTAACACATGAAATTCATTAAATGTTGTTTTGACCTGTGTTGTTGCTTG
TATGTACATGCATATATTAGTGCTAATCAATAAAGTTGCCTACGCATGTT
ATGCCGTGAATTTCAATACTGTCAACTTCTTCAGTTAATATGTTGTGTTT
ATAAAGTAAAATATGTACTTGATTGACATTTGTGACAGGTAAGATGAAAA
GTTTTAAGAGTTCTTTACAGGAATCAACTTATGCATCTAAGTGGAGATCA
ATGATAAATACAGTTGCTAAACAAGTTTCAGAAGTTAGCTCTCTCTCTCT
CTCTCTCTCTCTCTCTCCCTCCCCCTCCCTCCCTCCCTCCCTCCCTCTCC
ATCTCCCTCTCCCTCTCCAAAATAAGGAGTGAACATAGGAGTATTGTTGG
AGTTGAACCCACTTTAATTCATTAAGAGCCAATAATTTATATTATATTTA
AGAGTGGGTTAGGAGACTATTGGAGATGCTCTTAGCAGATAATATACCAA
TAATACCAATGTAATAATTTATTTTATATAAAATATATAATATATAATAA
ATTATATAATATTATATAAGCGGTTCGGTTTTTCGGTTCGGTTTTAGGTG
TAAAACCGTAACCGTCGGTTCGGTTAACCGTCGGTTCGGTTGAGCTACGG
TTTTTTTCGGTTTTTGTCGGTTTCGGTTTTTTTCGGTGTGGTTTTTCGGT
TTTTCGGCTCGGTTTCGGTTTTTCGGTTTTTTTTGCTCACCCCTAGCCTC
CTGTCTGCCACCATCTCATTCATTTTCTTAATTCCACTTTTACCCCTCAA
TTTCACTTGAAATTATATCACACCACTATAAATACTCATTTGTCATGTTA
CGCTAAGCCCACAAGGTCATTATTGTACTTTCACCGACCTCTCTCTACCA
TCTTGTCCGTGAGTAAACTACAGCAGCCTTCTAACATATATCCGCAAAAA
ATCTCACTTTCTCCTGCTTTCTCTCTCAAACCTCAAGAAAAACACTACTC
TCTCTCTAGAAAATTAGGAGAGACACCTCTCTCTCTCTCTCCCTCTCTCT
CTCTCTCATTTTATGGAGGTCATATTGACCAGTTGCAGTTAGGATGAACT
ATAAGAATTTTCTTTGTGATTTTTTGAGGATTCTATATTGTTATTGCCTT
GTTGGTAACTCGCATTAAATTGTATGGATTTTTATTCAATCTACTGGCCT
TGTTAATTCAGTTTTACTTGTATGAAAATATATTCCTTAGTACCATTGAG
GTGCCTACGCGAAAAGTCTAGTCAAAAGTTTTTACTGTTCCCTTTTGTAG
TATTTGAACTTACTGATTGATCTTTAAATAACTAAAGGTGCCTATCTCTC
TGGGAATAAGGGTAGCATCTCTTCGAGGAACTCTGAGATTAGAGATAAAA
GCTCCTCCATCTGATCAGATATGGCTTGCATTCACATCTGTGCCTGATAT
TGATTTAAATTTGGAGTCTTCTGTAGGGGAGCACAAGATTACCAATGGAC
ATATTGCTCTGTTTCTAATCAATCGATTTAAGGTCAGGTCACTTGAGTCT
TCTCAAAGAGCTGTTCTATTTCCTTTGTCTTATATATGATATTACCAAAT
TGTTAATAGTATGTTACTTGTCTTATTAGTTGATTTTATACATCTATTAT
TCTTAACTTAGTAGCAAAGGCAACTATCTCTTAGTGTCACCAAGGCCAAC
CAAAGAAACATTTTTGACCCCTAGTTTCATGATTCTTGATTAAACTATGT
TGTTATGTCATTTCTATTATATGGGTGTGCTGATGATACTGTAGACTGTA
GCTATACTCGTGCATCTATTAATGTGTTGATGTAGTGTAGTAATAACTAA
TAAATGTGTTTTATCTTTTTGTTAAATCCTTCTGTTGTCATTGATGCAGG
CAGCCATTCGTGAAACTATGGTGCTTCCTAATTATGAAAATATATACATC
CCATTTATGATAGCTGAAAATGATGACTGGCTCCCTAGGCAAGCAGCTCC
ATTCATTTGGGTAAATCAAGAAGCCAGCACTGATTCCCCAATCATACATG
AAAAACCAAGCTCCCAACACGATGAAGGAACACAATTAAGTGGATCTGAA
AGGGAGACGCACAGCAAAACGGAATCAAATGAAAGCAAAATCGAAAAAGC
CGACGGTCTTCAACTGCAAACTAAGAAATCCGTAGCAACACCATCAGAAT
CCACTAATCAGTCATCTGTTAGTGAAAATCCTATCCAAGAATTAAAAACT
CCATTGTTGGGAGCTGGTGAACCAGAAGAAATTCCCTTGTTGAGTAAAGA
GGAGCATGTGGAGAGGCAAGAACCAACTCCAGGAACCCAGTCACCATCAC
GATCATCGAGTATATATGATTCATCATCACGTTCATCAAGTATAATGGAT
GAAGAGACTCATTCAATTCAGGGAGACGAGTCAAGGCCAAAAAGAATGGG
GAATACGCGTGCAAAGATGCTTGGTTTGGGGAAAAAGATGGGGGAAAAAC
TTGAAGAGCGGAGGCGTCATATTGAAGAGAAAGGCAGAAACATTGTAGAG
AGGATGCGAGCGCCTGACAAAGCTGGCTCTCAGTGATACACATGTAGAGA
GTTACTGGACACATTTAACATACAGTAAGCAAACCTTTATTCTGCCGAGT
CAATGTCTTTGGTCACTCTAACTAAAACTGAATGGCCGAGGTCAGCGATA
GATGCATTAAAGATTCTGCAACTGGTAGCAATCAATTCTTTGAAGAAAAA
TTGTTCTGCATACTCTTCTTTTTGTGCAATGTCAAAACAGTTCTAAAAGC
AGCTTTTGAGCTAAAGACTGCTGTTCGGAAAAACTGTTTAAAATTACGAA
ACGCTTTTTCACCCGTTCTTGAGCAAAAA