| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017363272.1, is a part of gene, LOC108196140. |
| The genetic_marker, MK001084 GSSR-085, is located in gene, LOC108196140. |
| The mRNA, XM_017363273.1, is a part of gene, LOC108196140. |
| The mRNA, XM_017363271.1, is a part of gene, LOC108196140. |
| 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_017363272.1 | XM_017363272.1 | mRNA | DCARv2_Chr7:30466802..30475312 |
| XM_017363273.1 | XM_017363273.1 | mRNA | DCARv2_Chr7:30466918..30475312 |
| XM_017363271.1 | XM_017363271.1 | mRNA | DCARv2_Chr7:30467774..30475312 |
TTTTCAACCTATATCATTCAGATATGGAGTAGTAGAAGGTATATACACAA
ATCTGCGATTAAAAAAACACTTAAAACAGGCTGTTTATTCGGGTAACTAC
TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCAAATTGATCTCGCT
AAATTCTAGGGTTTTATTAACTCCTTCTTGCTTCCAACTCGAGTTCTGCT
TTCATTTTAATTACTTTACTCTTATTCCTCTGTGTTTAACAATCACAAAC
CCTAGCTTTTGATCCATTAATTCTGATTTTAAGGTAAGATCAGCTTTGTT
CTTCTGCAACTATTTCAATATGTATGTATTCGTATGTATAGGTAACTCCT
GCGTGTACTGATCTTAGTTTCAAGTATCTGATAGCAACTGAATTAAGGTG
TTTCTTAATCAGTTAATGAAAATGATTGCAATTGGAGTCTGTTTCGAAGA
ATTTTAACATAATATAGGATATGTGTCAGGGATTTTATGCTTCTTTCATT
TCGGTCAAAGTTTGAATCTTTCGTGGCTAAGATAACTCTACCACCCGGAA
TGTTTGAATTTATGTACTCTTAAGTGTTGATATGTCGGTTTACTTGTAAC
ACCCTTTTGTTTGCTTATGTGTAACACTGAGCTATAGAACATTTGTTTGC
CTAAATTCATTGGAGTTTTCACATGTGGGGGTGTATACGTATGATTTTTA
AATTGGTGAGAAGTTTCGAAGGTGTAATTGCATTGCATGACTGATGTTAT
TATTGAATTACGCTAGACAATTTTTCAACGAACAAAGGTAAATATCATGG
TGCTAAATATACAATTGTTCAGTTATTAAGGTTTTAGAGGTAATTTACTA
ATTTAGCATGTATAAGTTTAAAGTCTTTATTCAGTATTGTAATTTGTTGT
TTTGTTTTAGTGTTTGTCGATTGTTCATTCATAAAGTTGTATATAATGAT
TTTCTGTGATCGTTCTTCATTAATGGCTACAGGTGCGATGGAGATATCAA
AATTGAAGGCGCTTCTAAAAAATATATCAGGTTTATTTCATTTATCTTCT
CGTGATAACTTAAGCTTTGAACCAGTTCAGAGGTATTATCAAAAGGTTGA
AGAGATGTTCAAGGTGATGAAGCTAGTGCTTGATGCTATTAATGATGCTG
AAATAGCTTCTCATGAATCACTTCAAGAGCCATTTGCAAGCTTGTATGAC
TCGGTTGATGAATTAAGAGAAATATTTGAGACGTGGCATCCATTAATGAG
TAAAGTTTATTTTGTATGCTCTCTCTCCCTCTCCCTCTCTCTATCTCTCC
CTCTATCTATCTATCTATTTATCAATCTATCTATCTATCTATCTATCTAT
CTCTTTATCATGCCTGACACTGTATATATACAACTTATTTTAAAAACAAT
GGCAAAGCAGTGGAGTTGGTTGGTACTCCCTCCGTCCCTTTTTAGTTGTC
ACATTTGACTTTTGACTAGTCAAATTGACCAAAATTTGACTGAAATTTAT
TAATATTTTATCAATTGATGAAATAAAAAAATATGTCACTGAAAATAACT
TTTAATCTTCCAGTTCTTTAAAATAATGTATGAATGACTTGTAATCTTTG
GTAAAAAAATTAGTTAATTTGACTAATAAAAATAGAAATGTGACAACTAA
AAAGAGACATAGGGAGTAATTGACAATGTTAATAGTATGTGATCCATTTA
GTGGCTTCTACTATAAACTTACGGTTTGACTACTATACGCTGAATCAAGT
ACCTAAAAGTATTGAACTAATAATCTACTATATACATTTTGTTAAATAAA
GATTTATACCATTTACAAAGCAAGTGGGTAGCATCCTGATAGAGGAGGAT
AGTTATTGTCTTTTGTCATGTTACTCGTTTATATTTCAATTAAATGTATT
TGTGGTCGTATATGTTAATTAGTTGGGTAGGGTTGTAATACGAGGTTTGA
ACTCAATTTAATATTGAGCTTGACTCATAGATGGGTTCAGCTCAATTCCA
ACTCGAGTATTTTTGTTGAATAAGCAACTCCAGGGCAAGCTTGAGTTTCA
GACTAGCTTGATAATGTTTGTCATGTTTGTCTTAATTGGGCTCTATATTC
GGTTTAAAAATATATTGGTAATATTGATTTGAACTGTGTAGCAGGCTTAA
AAATCAAGATTAGATTTTGAGTAGGTTGAGGATAAAATGGTCAAGCTGAA
CATAATTTTTAAGTTCATTAAGTTTTAAATTTTGGTTTGACTCGATAAGA
GAGCTCGAATTTGATAACTAATATTCAGCTCGACTCAGTTGAATTACAGC
ATTATAGTTGGGTTCTTGAAACCAAAAAGCACATTTTTACAAGTCTCTTA
TGTTTAAATAGTTAATGGGTGCATATTTTCCATATAACCTTTAAAATCTA
TACTAGTTGTGGCATAATGTTAATCTGGGTTTTTTATTTATCATTATGTC
GTTGGTTAACACATGTTCACAAAGTGGAACATGGATAGATCAATTAAAAT
TTTGTTTCCATAAGCTTAAAAATATTACCCTTTAAGAAATGTCTAGGGAT
CTGATGCCATGACTAATTCAATTTTTACAATATCCTTAGTTCCTTACCGG
CAGCCGGTGTCAAAACCAAGTCCTTTTGTGTGACTCCCTCCCAATCCGGG
GCCTCGATCATGGATCCATATAACACAAAAATTATGCAAAAATGTTAATA
TAATATTCTGACTCCGGACCTATCACATGTTATGGTATGATACAAACAAA
ACTAAATATTATTGCATCTCATATTAAGGTTAGAGACATAATTTCGATCT
GAAGTTACATTTTTTTTTTTTGTCATAGATCTGAAGTTACACTTATAACC
CTTAGAATTTACATAGTTAATACTTACAGAATCCAACTTTTCCAACCTTC
AAACTACTAAACACTCTCACAAATGAGCCAAAAGTGTAGTAAAACATATA
CCGGTAAGAACTATTTTTCCTGGCGGTATGATTAGTCCTCACCATCCTCG
TGAGCCTATGGTACTCTTCTAAAAGATAATCAGTCATCGGCTCCTCATGC
AGACGCCTTCTGGCTATTTCTTCCACAACTCTCACCCTAGAATCTTGCTC
AGCCTGGGACACAACTACTCGGTTCCTATTCTCATAAGCCACCCTATTCA
TCTTGAAACTTCGCAGAATCCCTACATAAAGGATCTCGTGGTCTGTAGGA
AGACTCGGGTATAGGCCTAAGCAAATCAGTTTGTTTTGTTAAGACATGAG
CAGGCTCAGGAACAGACATTCGAGGAGGAACAGGTGCAGAAGTGGGCACA
CTCTCAGTGATACCGTCTATGTCAGTAGTCAGTACCAAAACCTGACTCGG
AGGTGTCAGTTGCAAGTTGGGATGGTGCCTCGGAATCTCCATCACTAGTC
ACATTCATCTACAAAATATGTTGATATAACACATATAATAAGAAAAAAAG
TTATCTTGAATATAATGCCATTTAAGACTTATACCCCTAACCGTCAAGAA
TATCTCCGATAATTTGACTTAACTCTATACGAGTTACATTCTATTATCCA
CTCTTTTATTAGTCCTGTTTATTTCATTTATCCTGGCTTGTTTCAGTGAC
CACAACAAGTGGCTCCTTTCAACTGATCAAACAAATCATCAATCCTAGAT
AGTGGGTATCTATTCTTGATGGTTAGTTTAATTAGTTGAAAGGAACCACA
TGTTGTGGTCATTGAAACAAGCCATTATAAATGAGATAAAGAGGATTAAT
AAAAGAGTGGATAATAGAATATAACTCATATAGAGTTAATTTAGATTATC
AGATATAGTCTTGTCGGTTAGGGGTATAAGTCTTGAGTGACGATATATTT
AAGATAACCTTTTTTTTATTATATGTGTTATATCATCGTATTTTGCAGAT
GAATGTGACTAGTGAAGGAGATCCGAAGACACCACCCCAACTTGCATCTG
ACACTCTGAGTCGGGTTTTGGTACTGACAAAGACGATACCACTGAGAGTG
CACCCAATTCTGCACTTGTTCCTCCTAGGATGCCCGTTCCCGAGCCTGCT
CCTATCTCAATTGAACCTTCTGATTTGCTTAGGCCTATACCTAAGTCTTC
CTCTGGACCTCAAGGCCCTCCAGGTAGGGATTCTACGGAGTTTCAGGCAT
TAATTGACAGGGTGGCTTATGAGAATAAGAACTGAGTAGCTGGGTCCAGG
CTGAGTGGGAGTACATGATGAGAGCTGTGGAGAAGATAGCCAGCAGGTGT
CTGCGAGAGGAGCTGATGGTTCTTTAGAGGAGTCTCGTAGGCTCACGAAG
ATAGTGAGGACTAAGCATACCGCCAGGAAGAATAGTTCTTACCAATATAT
ATTTTACTATACTTTTGGCTCGTCTTTTCAGGTAGGGTATTTGTGAGAGT
GTTATTTTATAAGTATTAACTATGTCAATTCTAAGAATTACAAGTGTAAC
TTCATATTGGAGTTATGTTTCTAACCTCATTACGAGATGTAATAATATTT
AGTTTTGCTTCTTTCATACTATAACCTGCGATAAGTCTAGAGGGCATCGG
GGTCGCAATATTATATGTATTTTTTGCATGTAACTCCCCGGATTGATTGG
GAGGGTGTCACTTCTCTTTTAGTTGGGAAAATCAAAAACAAGAGGGAGAG
TCAGGAAGATGATGGTTTAAGAAAGATCATGTCAGCAATCAGGTTTATAT
ATTTTTACTCAGTTTTATGGGTCTGTTTAACTATTCTAAAGGAAGGATCC
ATTGAACTTGCTGATTTTGGCTGGAATTCCATAGACGCTGATGTACTAGC
TCATGTTTCCACTAGGTGGTTCCGCTACATTTATAAGTAGTACTTTTTTT
TAGTTGGTGATTTAACATATTCTTTTGCACTAGGTTCTGCAAGTTGAATC
CTTAATGATAAAGGTCCGTTCATCTGGGTTAGATATTTTTGAGTTTCTAA
AAAGTTCTGATCAACCTCTCCCTGTTGAATTGAGCACGGCATCTCTTGAG
GTACTTTCTGTTTCATTGCTATATGAACATGATCTGATTCTGAGTAGCTC
TTTAATTTAGTTTGTATATGCTTTGTTATGGCCAAAAAGGATACCCGTTG
ATAGTTAACCTAATTTGAGTGAAGGACAGCATCTACAAGCCTTAATGCTC
ATCAGTTTCTGCCCAATCCTGAACACTCTGTGTTTACAACAGCAAGTACA
GTAGAACCTTTCTAAAATAATATTCGATAATATAATCACCTTTCGAGAAT
AGTAAATTTTTCGGTCTCGACACAGACCAACTAAAAAGGTTATCAAGTCA
ATAAGATAACAAGGTGATATTTTATAATAGTTTAATATATAAATCAGTTG
TTCCTTTAATATCATATATTGATTATTTCAAACTTACAAATCTATCTAAT
ATTAACATCGTAAGGTATGATTCCATGCTTGTTATCTTCTCCTTAATTTT
ATCTTGTTGAAACTTATGTCAAGTTTTCCTTGCTACATCTAAATTCTGGT
ATGGATAGTTTTAGATGCGATAAGTGTCTTTTTGCTTAACTAACTCCAAG
GCAGCATACTGCCTCTAATTTCCCATCAACTTCTTTCTCAAGGATGATAT
TAACAATATCTTATAAACTTCATTTCACATGGATATTTCAATAGGTTATT
GATGTCTATTATGCTGGAATATCATTACATATATAAGACTACTAATATTA
TAGTATACATAATCTTTTGTAAATAAATTTACTACATGAATGAGTACTGA
TTCTATATTTAAGATGCTTAAATTATTAATAAAAAATATTTGTGGAAATA
AATAAAGTTCACTCTTTAAATTAATAACATCAATTTATTTGACTAATTAA
TACCTCTCTAATTTATATATAGATATAGTAAAAAAAAAAGTTGCCCGTCA
ATATTTATTTGTAGAAGTTTTTCTATATTACTCAAGTGTTAAGCATATGC
AGTAAATTTGCTAGGTAGGACAAAAAACACACACGCATAGAGATGTGTTG
ATATTCTAATAGGTTTGACTTGTACAGCACTGCCTCCAAAAACTTAAGCA
TTTGGGATTGGAACAAACATCAGCTGTTATCACAAAAGCTACAAGGGATC
AGGTGGAGGGCTCTGGACCCACTTCAGATTGTCTGGTAAAAATTACAGAT
TCTTTGAGCTTAAAGTCCAATCAGGAACTTCTTATAGAGGCTGTGGCCCT
TGAAAAGTTAAAAGAGAATGCCGAGCAAGCTGAAAAAAATGTTGAAGTTG
ACTATCTTGATCAACTATTAGCTCTTGTTACCTACATGCATGAGCGGCTT
GTTCTGCTGAAACAGTCTGAGAGTTATAACACTGTTCAAATACCTGCTGA
TTTCTGTTGCCCTCTCTCGCTTGAGCTCATGACAGACCCTGTAATTGTGG
CTTCAGGACAGACCTATGAGCGGGCTTTCATCCGAAAATGGATTGATCTT
GGGCTCACTGTTTGCCCAAAGACGCGCCAAGTTTTGGCACATACTAATCT
TATCCCTAACTACACTGTAAAGGCACTGGTTGCCCATTGGTGTGAATCAA
ATGGCGTAAAGCTGCCTGACCCCATGAGGTCAATGAATTTAAACATACCT
TCTTCTCTCCTTAGACATGCAGCATCTGGTGCACCCCGAGATTCACAAAC
GGCTCCAGACTCTGCATACTCAAGCGGTTCGCCAGGAAATAACTTCATCT
CATCTAGTGTAACCAATCGGGAGGGAACTTCTCCATCACGTCCACGCTCA
TCTTCTGAGGATTCCTTGTCTGAGGAAGCTGAAAACGGGCATGCTTTAAA
CATTGATAGCTTGTCCCCCAGAAGATCTGAAAACAGGCAAGCGAATTTGG
GGGATAAAAATTTGGATTCGGGTTCCCGAACCACAATGTCACCTACTGGA
GAAATGCCCAATGTTTCGAGGACTAATGGGTCATTATCACATGGTCATAA
TAGGACAAGCTCAGCCTCTAGCACACTTTCTAATGCAAACTTTTCACAAG
GAATCCCTGGCGATAACAACGAGGCCTCCTCACTGGTCACGGCATACAGT
ATTGATGATTCAGGTGAGCTTACATCAGAACGCCAGTCTGCTGCTACTTT
GTCCTCTGCTCAGAGAGAGCCTGAGTTTTCACCCCGATTTGAGACAAGAT
CTCGAACTCAGTCAATTTGGCGCAGGCCTTCTGATCGATTTGTTCCTAGA
ATTGTGTCTTCTCCTGCTGTTGAGACAAGGGCTATACCTACTGCTGTCGA
GATCCAGATTCAGAAGATGGTTCAGGATTTAAAGAGCACTTCGATGGAAG
AACAAAGAGATGCTACAGCTGAACTTCGTTTACTTGCAAAACATAACATG
GACAATCGTATTGTAATTGCAAACTGCGGTGGCATACCCTTGTTGGTCAA
TCTACTTCGATCAACAGACGCAACAACACAGGAAAATGCTGTCACTGCAC
TTCTTAATCTGTCAATCAATGATAACAACAAGGCTGCTATAGGAAACGCT
GATGCAATTGATCCACTAATTTATGTCCTTGAGTCGGGGACCGCTGAAGC
TAAAGAAAATTCTGCTGCCACACTTTTCAGTTTGTCAGTGATTGAGGATA
ACAAAGTCAAGATTGGGAGATCTGGTGCAATTCAACCTCTGGTTGATTTG
TTGGGGCATGGAACTCCTAGGGGAAAGAAAGATGCAGCCACAGCTTTGTT
CAATTTGTCAATTTTTCATGAAAACAAGGCCCGCATTGTGCAGGCTGGTG
CAGTGAAGTACCTTGTGGAACTGATGGACCCTGCAGCAGGCATGGTTGAT
AAAGCCGTTGCTGTTTTGTCAAATCTTGCTACTATTCATGAGGGAAGGGC
AGCAATTGGCCAGGAAGGAGGTATTCCTGTCCTTGTTGAAGTTGTTGAAC
TGGGATCTGCAAGAGGGAAGGAAAATGCAGCTGCTGCCCTTTTACAGCTT
TGCACTAACAGCAGTAGATTTTGCAATATGGTACTCCAGGAAGGAGCTGT
CCCACCGTTAGTGGCTTTGTCACAGTCGGGCACCCCAAGAGCAAAGGAAA
AGGTTCTCTGCCTAATTAAAATTTTACTCCCTAAAAAATATACTTGATTC
TACTATGAATACATCTTACACTAATATTTTGTTTGCTTGCAGGCTCAAGC
GCTTCTGAGCTACTTCAGAAACCAACGACATGGCAATGGTGGTAGAGGAT
AACTGCGAAAGTTTAAAGTGGTATGTCCTCTAATGTTTAAAGTAAGAGTC
ATACAGTGTACATTTGATGTTGCAAATAATGCATTTGAATGTTGTAGTTC
TTTTATGTGTGTACTTAATTTTAAAAAAGCCGGAGAAAGAAAGAAAAGAA
CTGATTTAAGGGAGGCTTATTAGGCCCTTTGGTAGTGACTTTGTGAATTG
TCAAACTTTGTATATGTAGCTCAATTTTTGCAGCTTCTGTATGTATCTGG
GGCCACAGATTATTTATATTTTAAAGAGAAAATATAGTTATGTGTTTTTA
GTTTTCCCCT