| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017364240.1, is a part of gene, LOC108196803. |
| The genetic_marker, MK003514 K0958, is located in gene, LOC108196803. |
| 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_017364240.1 | XM_017364240.1 | mRNA | DCARv2_Chr7:3572495..3581560 |
GTTGTGCGCTCAAGTACACATAGATTTCCTTTTGTCCACTCTGAAAAGTT
TGAATACATCTTCAAGCTCTCTGATACAACTCAAATTCATTTATTTTTTC
AAATAAAATTAATTAGATTAGGCTTCTTATACTATAAATTCTTTTGTTGA
ATAGCTCAACCTTCGTGAAATTAATCCCCTGATCCCTGAATATACACACA
GAGAAGCAAGAGATTCATGGGAAGCACAAAGACTGTGGGGCCCTCAGGGC
CGGTGCCGCGGCGTGACCCGTACGAGGTTTTGAACTTGTCCAAACAAGCT
TCTGATCAAGACATCAAAACTGCTTATAGAAAGCTTGCTTTGAAGTAATC
TTTTTTCTTTTCTTTATTTTTTTTTAATTTTTAAACTCAACTATCATCTG
TTATATTTGTAAAGTTTTGGGCTTTATTTTTTGTTGTATCTTTGTGTGGA
ATTTTAAGATTTTGTGTTGGTGATTAGTTGAGTATGTGGACTTCATTTTA
TAAAGAATTTTCATTTATTGATTATACTGGCATGTGCAATGGGTTGATTT
GATTAAAGATTATTTTTCGAGAAGTTATTGTTGTGTTTGCTAGAATTGAA
TGAATCAAAGGATTTCAATTCGATAATAACTATTAATTTATTGGTTGTGC
AGGTGAATCTTGGTCATATCAGATTATATTATGAGAATAACTGTAGGATT
TTGTGCTGCTAGAATAGAAAGAAGTGAAGAACTTTAATTCGATGACAATT
GTTGCTTTATTGGTTTTGTGTATAAAATGGGTAGATTAAAATCGCGGGCA
TTGATTGCTGGTCTGAAAATTAACCGCGGATATTAAAATTTGGAAGCGAT
TTTGGCGGACTTAATATCCACATAGTTTAAATGTTGTTTCATTGCTAGTA
ATAATAATCCTTTAGTGAATTTGGCCATTGCTCCGAAATTTTCCTATGAA
ATTTGTAGCAACTGTTGAAGATATTGAAATTTTTTTAAGAAAATCTGATA
ACGCCTAGGACATGCTAGTAATGAGGTTTCTTTTTTGTTGTTGTTGTATA
GGTATCATCCTGACAAGAATGTCAATAATCCTGAAGCTTCTGAACTTTTT
AAGGAGGTTGCCTATTCTTATAGTATTTTATCTGATCCTGAAAAAAGAAG
GCAATATGACAATGCTGGATTTGAGGTAGTTCTCTTTAAAGAGTAACCCC
GTTTGCAAATTAATTCGAGCTTAGAAGAACTTGGTCCTACTAATTCTATT
TTTTTTCCTATGCATTATCAATGTTTTTCATTATATGCTCATCCATGATT
TAACTTTAACCTACCACAACAAGTTTGTGGCAGAAGAATATGATGGATTG
TTGTAATAAGACAACATATAGACTGTCATGGGAGGTGAAAAAGTTTTTTT
TAGGTTGTAGATTAGTAAAATGATTTCTAGAGTTAAGTTGTTATAGGCAG
TTTTCTTACTAGTGGGAGGTGAAAAAGGTTTTTTTAGGTTGTAGATTAGT
AAAATGATTTCTAGAGTTAAGTTGTTATAGGCAGTTTTCTTACTAGTGGG
AGGTGAAAAAGGTTTTTTTAGGTTGTAGATTAGTAAAATGATTTCTAGAG
TTAAGTTGTTATAGGCAGTTTTCTTACTAGAAACGTGATATTTTCGCAAG
AGGATGACAATCACATGGCGTACAAGATAAATGAAGATCACAAGAGCATA
TATAAGACTATAACATGCTCTATATATGAGACCAAATGTAAATGCTTAAT
ATGTACCTACAAGTAAACTATACAGAGCAGCTTATAACGGTATACACAAG
TAATTTAAGTTTCTATTTTCTTTCATTTGTGCATGATATCCTTAATTCCC
CTTAATACCAAATTAGTGGTTGTTTTATATATGACTCATAACCAGAACTG
TTGATTGATGCTTGGTGATTCAGAATAGATTAAATATGTTTTGCTTGTTT
TGAGTTTGACCAATTAAAAATCATATAAAGCACATTTAACATTTGGTATA
TAATCAAAGATTTCAAATCTGTAATTGAAAAAGAAATCTGATTCATTTTA
AGAAAGTACACCAAAAGGAGACGTCTGAGTTTGCCAAATGTTTAGGAGTT
CCTTTACCACATCTTTACTGGAACCATATCCTCTAGTTGAATTCTTAACG
ATCACATTTAAGAGTCCATCCCTTTTTATAAGAGCAGTATTACTATTTAT
AAGGTTGCAATAATTGTAATTTTCTCAACACAACAGTCTCGAGGTGAGTC
GGTGTATATTGGAGTCCTTGACTAGTTCTCCTCTAGTCGCATAACAAATA
TGCTTTTACATGTATGATTACAGTATATATAAAATATAATGAGTAATACT
TAAACATGGGACGACGCAACAAATTTGTACTTCAAGTTAACATGTTGAAT
CCAACACTACATAATCAATCATTAATTCTAAACTCAGTGCTATGCAAAAC
AAATGACACGAATAAAATGGAATGAAATGTTGTCATCGAGACTCAGTTGC
CTCACAATCACTACTCGTAAGCTCCAAATCTTCATTTTCTTTTGACTAAA
TAAAGAAAAAAGATGTTGGAGGTCTATAGAGGTATAAACTCGGGATAGCT
TTAGGATGCCAAATTAGAACCAAAAGCAGATCATTTTTATCTATTTTCTT
GGTGGGTCATCATATGAATGGCAGTTGCATACTTCTAAGCACTTTGTTTT
CTTACTCTTACTCTCACTCTCACTCTCATTCTATATTCATATTTATCTTC
AGTGTCATATAAATAAGATATTTTTACTTCTTTAACCACATCTGTCTAGG
TTTTGGTTGCTTTAGACGCTTAAGTAGGAACACAAATGCCTTTGCGTGTC
TTCATATTTCTATATCATTATAGGAATTTCCTCACGTTATCACGTGGTTA
TGTGAAGTGCTTATTCAATATACTTTTATACCTGTTGTCTGCTTTACGAA
AGTTTAATGTTTCTAATGGGATAAAGAGTTACACTGGAAGTGGTGTTCTT
GTTCTATTTAGACTAATATTATTCACGGTTCTTGCTTGTACCTTTGGTCT
GTTATATGTATTTCGGAAATAGGTGTGAACTGGAAATTATACTGCATCTT
TTTTAGCAACAATATTTAGAAAGATCTTCCTATCATACATTACTAATAGA
CGAGCATTGTGTTCTAATATTAATTGATCTTCCTGTATTGCATTGTATAT
ATGTTAATTGTTGAAGTATATATGATCCTGTTAGGCCTCCCTTTAAAATT
AATTGATATCCCTGTATTGCATTGTTTAAGGTTTTAGATGAGTTGATTAC
TTAACATGGTATTTTGATTTTTGATTGAGGGGAAGTATTGAATAATATAT
TATCCTGGTATGGCCTCCCTCTTAAGACCTTAAACTTTGAATGATTTGGT
TACTTAACAATATATAACTTTCTCATGGCACAAAATAATTTTTTTTCATA
TATAAAAATTCTGTGTCTTAGGACTTGCCAACATATAACTTTCTCATGGC
ACAAAATGATTTGTTCATGTATAGATAATTCTGTGTTTAGGTATTTAAGG
TTCCTCCTTCTGTATAATGGTGGTGTGTTAATATTCTATTGTGGTTTCTA
AATTACATTGTACCAACAATGTTATTATTTTACTCATCTATGACTTCTCA
ATTTTTTAAAAAAGGCTATCGATGCTGAAGGCGTGGATATGGAAATTGAT
TTATCTAATCTGGGAACTGTCAATACTATGTTTGCTGCATTATTCAGGTA
TCTTACTTTGCAGTGTTTATTATTATCTCAAAAGGGAATACCTTACCCAG
TCACTGCATATATATACAGCAAGCTGGGTGTTCCTATTAAAACCACCATT
TCTGCTAATGTTCTTGAAGAAGCATTAAATGGAACTGTTACAATCAGACC
CCTTCCGCTGGGATCATCAGTTAGTGGAAAGGTATACATTTGCTTTAGCC
TGTATAGATTGCTCTTCAGATTTCTTTTCTACTGAAAATTGTAAGTTGTG
GGCCAGGTAGAAAAGCAATGTGCCCACTTTTTTGGTGTTACTATAAATGA
GGAACAAGCTGAGGCAGGAATTGTAGTCAGGGTCACTTCTGCTGCACAAA
GCAAATTTAAGGTATAATGACATTCATAATGATTTTATCATTCTTCGAAA
AGATTACTTAAGCCCCTCCCCCACTCGATGCATCTGAAGAAAATACAGTG
ATCATGGCGTGTTATAAATGTATGTGTGTGGTGCTAACTGACTGATTGGC
ATGTGAACATTTATATGAGTGTGCTTTTGCAGCTTCTTTACTTTGAACAA
GATGCCACTGGAGGTTACGGGTTGGCTCTGCAGGTATGTAATAAACAGTT
GCTATTTTGCCAAATAATGTTATTATGTGATAATTTCTAGTCCGCCTTTA
ACATACCTCGAGGTTCGAGTGTTCTTGAAATTTTTTTTTTAAAGAAATGC
TTGCGACATTTTTGCTGATATTCTGAGTTTGTTGATCATCATATCGAGGC
TTATTGTTTGGCTACTTGTATGTACAGCAGTGTTTGTGCGTATTTTGTAT
TGTTGTGCTGATTTGCAAACTTTAGCATAATTATTTATAGATTGAGTGCT
TCTAGTATCTCTTCTGGATAATGTCTGTTCAATTTGGCTTATCGACTTAA
AAAAAAAGTTTACCAAAAAACACAAGACATATATATTATTATGAATTGAT
ATATTTAATAAATTTGAGGACTGATTTGTGACTTTAACTATTCTCTGAAG
AGATAGGTTTTCTACCCCCTGTTCAAACCCTAAAATTTAATTTTTTCTAC
GTTATACGTACCTTACTAAGTCCCATCAAAATTATGTTTGATTATGGGTG
GGAGCCAGGAGCTACCATGGGTGTTGGCCCTGGGTGCCACTAATTTGAAG
AAAATGGCCCAAAATACCATTGCCGGAGAAGATGATCCCGACCTACCACT
TTGCAATCCAAAACGCTAGATCGTGTGACGTTTATCCTCTTTTCCTTCTT
AACGCTACACGATTAGCATTTTGAGACCCTAAACACTATTTCATGCAGCG
TTTTACTTCTAAAACGCCAGATAGTGTTACGTTTTGTAGTGATTTTAAGC
CATAAACGCAACACGATCTAGCGTTTTCTTCCAAAAATCGAAATGCTGGA
TTGTCTGGCGTTAATAAATGGTATTTTGGGTCATTTCCCCCAACTCTGCT
ATTTTGGGCATTACTTGTGTGTTTTGTGGCATATGGGGCCTCTTCTCAGC
TACCATGGGGGCCAAAAGTATATTTGAGTGCCTATATACTTTTTGGTTGC
AGAACATAGTAGAGACATTATGAGGACATGACAATGTGCTTTATTGAAGC
TAGAGATTGTACCAAACTGTTTTAGTACAGTTAGATTAAGTTATATAGTA
TGTATGGGTCAATGTATAATAAAAAAGGAGATTATTATTTATCAAACAGA
CCACAACCTACAAACGGTTATTACTCAAAAAACAAACATTTTTTGAAAGA
AGAAATATTCCATTTAGCCCACGCATAGCGGGCAAAAATACTAGTGTGAA
TAATGCAGACTAGGTAGATATGTTAAAATTGTTGTATGGGCAATGACAGG
AAAAGAAACATACTTTGTGGAGGAACAAACAATCCTGACGATGTATCATA
ACATGCTGTTCTGCTGGCTTAAGTATGGAGTAACCAAATGGTTGCAGGCC
TTCAGTGTAAAAAAGGTACCAATCTAGGAAGCATGAGTGCGGGTGCGTGA
TACGGAGATACGGGAATTCGGCAAAATCAAAAATATGGGAATACGGGTGT
GGGGGGATACGGCAAATATCAAAAATATTATGTGTGTGTGTGTGTGTGTG
TGTGTGTGTGTGTGTGTCTACAAGTATACCTGAGTGCAGAGATCTACAAC
TTATATAAATACACGAGCAGATATATATACCACTCATACACACACACAGA
TATATTATATTGTTTATGTCGACTAATTAACCTTTTTTAATTGTGTAAAT
TAAAGTTTTTTTTTAAAAAAAGTTGCTGGAAATTACGAAAATTGTCATTC
TGACTTATCCCCGCACCCCCATTTACGTATCCCCGTCTCTGACGTCACCG
ATACGCCATGTGGCGTATTCCGTATGCATTCGGCCGCACCCCGCCACACC
CCCGCACTGCGAAGTATACCATACGCAGTTCTTCACTCAGGTGAAGTATC
TGTGCTTTCTAGGTACCAATGTTTTGGATCTCAGATAGAGCTTGTTGAAG
TTGCAATATTTTGTCTTCTTTCTATGAGTAACTCGATGTTGAATGCTGAC
ATTAAACTTTAGCCAGACAACTTTGAATTTGGTGCTACAAGATCAGTGTG
ACTGGTGCTTGAAACTTAAACTGTGGATCAATGTCAATGTAATTTGTAGA
AAAGTTTTATTAATTTTGGGAACACAGATCCTTAATAACACTTGCCAACA
TTTTAACTGTGTCACACTCACATTATTTATTTACTTGTGCTCTGGTAATG
TGATGTTAGGATGCTAAAGTATATTAGTAAGTATTAAACTATTAATACTT
AGTTGTACTGATGATTGTATATAACTATATATAGTATCTACTTCTCAAAA
AGATTAAATATATCACATCAATCTAATATTTGTAAATTTTATCACTAGTA
AATTTTGAGATAATAGTGTTAATATATATAGATTTTTTTTTGGTCACAAA
TATTTATAGTTGTTTAAATATTTGTAAATTTGGTAGAATCCAAGAGTCTT
CTAACAAATTATTTTTGGTCACATTGAGTATGTCCCTTTTCCTTGGTTTA
TAGTTTATACTCCCATCCACAGTATTTTCTATTCTACGTCCATACAGGAA
GATAGTGAAAAGGCCGGCAAAGTGACATCTGTGGGGATGTACTTCTTACA
TTTTCAAGTATACAGGATGGATTCAACTGTTAATGCGGTATATTAATTAC
AGTGCCATTTTCCATTTTAATCTCTGAAAGACCTGAATCATACAACTTAT
CATCTTTATGGCTTCATATATGGTGGTGCAGTTGGCAATGGCCAAGGACC
CTGAAGCTGCCTTTTTTAAAAGGTTGGAAGGGCTACAACCTTGTGAGGTC
TCAGAACTAAAAGCTGGGACCCACGTGTTTGCAGTATATGGTTTGGAATT
CAGCCTTCTTGTTTTATGGTTCTATCTTCTAAGAAGCCTGCCTACAGTGA
TAGATTAAATTAACTATGCAACATATATATGCAGGAGATAACTTCTTTAA
AACTGCTTCCTACACAATTGAAGCTCTATGCGCAAAATCATATGAGGATA
CTACTGATAAGCTCAAAGATATTGAAGCTCAGATCTTAAGGAAGAGGACT
GAGCTTCGCCAGTTTGAGACCGAGTACAGAAAGGTAACAACCTATAGTTT
TTCCCTGCTAGTGGTTTATGTTCTGCGACATAAGCTTGTTGATGATCCAT
CCCTGATTTACATATTGTAGGCATTAGCACATTTCCAAGAAGTGACCAAC
AGATATAGCCAGGAGAAGCAAACTGTAAGTCTCTGTCCATAGTTGCTGTA
ATCTTTTTTGGCCCTTATACTTGAACAAGAATAAAGATGCAACAGGATAA
TTGCAAATAAGAGCATCTCCAACCACGTAAAACCCTTAGCTAAAGATTAT
TAGTACATACTATAAATAAAAAATATAGAGATTATGTGAAAAAAACTCAA
CTCCAATGGTACATTCCCCCTTCATAAATATAGGCCCTGGTTGGAAGTTA
GAGGTTTTGGACAAAATTAGAGGTTTGAGTCTTGAGGTGTTTTAGAGGGT
TTGACCACTAGAACCGGTAATATTAATGTTTGGTGGTTAGCGGATTGAAA
TAGAGGTTTGGATCCAAAAAGCTAATTTTGAAAAAGCTATTTTGAGGAGC
TTTTTGGGTTAGAGGTTTTGGTTTGTGTCAGATTAAGCTGATCAATCAGC
TATTTACCAAACAGTTTTACGAGAAACTATTAATTAATCCGCTAGTCAAA
ACATCTACTTCAATCAGCTAGTCAAACATCTAATTCAATCTGCTAACAGC
TAACCGCAAATTCTCAAACAGGGCCAAAGTCACCCTTGATGTTGGCTATA
TTTGTCAAACCTCTACAGGCCTATAAGAAGTCTGTAAGAAGATTCCACTT
CATTTAGAACCGTATTGAAGTGATATATTGTATTTATAACGAATTTAAAT
TTTAGTAACATACTATGTTTAAAATATAGCCAACTATTGTAGCCAATACC
ATCGAAGCACAATATCTTACAGGTTCAACAAATTTTACATAATGTTCTAG
AGGTTCAATTTAGCCAACCTTGTTGGAGATGCTCCAAGTAGTTCATATAA
AGATAGCTGTTGCTTCTTACTATCTTGAAAATATCTTTGTTGTAGCAAAG
TTGTGCTGTCTACTATATATAGAATTGACTTCCACTTTTGCTTTGTTCTG
TTAACGGATTATAGTTGTTGGCCTGTCTGTTATGCTTTGCTCATATATAA
GGTTATTTAATTGCGAAGTTGCCTTAATGTCTTGTTCTGTCATAAGCATC
TGTATATGTGAGCGTGTCCTAAAGTTTTCCTTTAATTATGCCAGACTTGG
GTAGCCCGAGTTTACAAGTAATATTTCTCCAAAATGGATATGATTATTGG
TTCATTTGCAATACAGGTTGACGAGCTGTTAAAACAACGAGACAGCGTAC
ATTCTTCATTCACAGTAAGTAAGCTGACCATCCAAACTAGCGGGGATACG
TCCAGTGTTAGCAATGGAAATAGTAGCAAAATACCTTCTGAAGATGGTAA
AGCGGACAGCCCTGGGGAAGATGGTAGCTCCGATGGGAAAGATAAGTCTG
CTAAGAAGAGGTGGCTAAATTTTAACTTGAAAGGTTCAGCAGATAAAAGA
AGTGCTTGAAATGATCTGGTTGTTAATAGTCGGTGTATCAATTATTTAGA
AGGATGAAACTCCATTCAGTTTTTCTGCTCATATTCTCGGGTTTTTGGTT
TTTGCTGCCAGCAAACGCTCAGCTTGTGTTCAGTATTATTTGTTTACCCT
TTTGGGGTTGCCCCA