| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017370787.1, is a part of gene, LOC108202415. |
| The genetic_marker, MK003525 K0969, is located in gene, LOC108202415. |
| 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_017370787.1 | XM_017370787.1 | mRNA | DCARv2_Chr9:33305864..33314436 |
ATCATCATCATCGTAACACACACCACAGCGAACGGCGCCGTTTCGACCCC
AACACGACCATAGTAATTGAAAAACGAGGTAAATTTTACAACAGTTGTGA
AAACAGTGCTGCAGATCCAACATATACAGACATACAGATACATTTATTGT
CTTTCTCCAACAAGACCAAACACAATCGGCATCTCACTCATCTCCATCTT
TTGATTTCTTCGAGGTAATTCCTGTCTCCCTCAGTTCTTGTCTTTTTTAG
GGTTTTATAATTTCCTATAATTTTCACAGGGAGAGAGAGGGAGAGATTGA
GAGATATTGGGAGAGATTGGGAGAGAGAGGGAGAGAGAGCTATGTGTGTA
TATATGTGCATTTGTATATAGTTATTGATGAATTGGTGATGTGATTGAAT
AGAGACCATGATTGTTATGTTGTTGATTGAAGTGAATTGTTGGTGGTGGT
GTTGATTTAATTGTGTTTATTTGGATCTGTGTTTTTGGTGTTTGTATAGA
TTATGAAGGATTAATATGTCGGGGAATTATGATTCGGAGGAGTTGTTAGA
TGGTTCTAGAGAAGCTAGTTCAGCTGAGGGTTCAGCTGAAGGAGAAGACG
GTTCAGTTCTTGTCAACTCGGTTGACTCACCGAATCAGGTATTAATCTTA
GCATTCTCTACTTTAAATTTAAGTACTGATTTTGATTTGCCCGAAACTAA
TTGCTAAGCTTTTATGTTTGATCACATTATATATGCAGTGGAATCTGGAT
AAGTTAATTTTCACAGTAATATATCTTTAAACTTGATAAATGAACAATCT
TGATAAACAAATACAATGCATTTATGGAGGTTTTAAGTGTATATAGTTGG
TATACTTGCATTTTCCGAATTTAGCAGGAGTGGTAATTTGGTGGTATTTT
ATATCTTCTTATGCTGTTACTACTTTCGATTGTTTTTGGTTTTGATGTAA
TTTGGTTTTGGTGTAAGATTTCTAACTTAATGTTTCTGATAATTAGTGGA
GTTTGATTTGTCAAGAGCTTTGCAACCCAACTTTGTGCAGGTTGAACGTA
TAGATCAGGATGATGGAGTTTTGGTTATGGGAGTTGATACCTTACAAGAC
GACCAAAATGAAGAAAAAGTTATAGAGGATGGAGGGAAAGATGACATGTT
TGTTGATTGCCCAGATGAGCTGGTATCCTTTGATGGGAGGATCGCTGTTG
CCGATAACATTGAAGCAACAGCAAGCTCTGAACCCCAACAAGGGTTTGAG
GGATATAGTGCCGGTTTATATATATCAGACAAAGGAAGTGGAGATGATCT
GACAGGTGAGCTGGAACGTCTGCAGGCTCTGCTTGAAAAAGCTGTTGGTG
AGAAAGAAAGCTTTGCACTGGAATATGAGGTTGATGAGCTAACTTTTGAT
AGTTTTTGTGTCTTTGAATGAATTTTCCTAATTTCAAGTCTTTGCAGGCA
GAAAGAAGATCTTTGGCGCAAGGACTTGCTGATCTTCATCATCAGCTCAG
TGCTCTGAGCACACAGGGGTCGTTGGTCAATGAAAGTGATGGCGGGCTTG
TGAGCCATTATGACTCAGAAAATTGGACTGGTGAAAAGTCTGTGGTATCG
GATGATACCCCGTTGCAGGATGTGATATGTGATTGTTCCAAGTTAGTTAA
GCATGCCTTAGATGACCGCTCACAGACTCAAGGGACAATCAGTGAACTCC
ATTCAACGCTGCATAAAAATAATCAAGAAATTCAGGAGCTCACTGCCAGA
GTAGCTGAATCTTCTGTGCAACAAGATACTGAGGCCATTGCAAACAGGGT
GTTGAGTTGTCTCGCATCAGCGTTTAATCAAGATGAACTGTTGGATATAT
CATTCACCCAAAAAATGTGTCATATAGAAAGCGCCACCTTATTTTTGATT
GAGAATTATAATAGTTTTCTTTATGAAACTGATTTACTCAGGCAATGCAT
AACGAATGTAAGGTCGGATCACAATCTGCAAGATGGAATAGGGTCAATCT
TTCTCACTGCACGTGAAGAACTAATAGAGATAAGAAGAAAAGAAGTTGAG
TTGACACAAAAAGTGATAGAGTTGGAAGAAAAAAACTCAAAACAGATGGA
AGAACTCGCAAGAGGTAAAGAAGCCATTGATGTGGCACATGCAGAAATTC
AGAAAGCCAAAATGGAGCTTGAACATGAGAAGGCGAGGTTTAATAATACC
AAAGAAAAGCTTAGTTTAGCTGTAACAAAAGGAAAGGCGCTGGTTCAGCA
CCGTGATTCATTGAAACAGTCACTTGCTGACAAGACAAATGAGCTTGAGA
GATGTCGTATTGAAATCCAGGAAAAGGTTAGTGCCATCGAAGCTGCTGAG
TTATGTAAGAAGGAGTTGACTAAATGTGAAGATTTGGCTGCTTCGTTGAA
TGAAGAACTTTCAGAAAGGAACAGTGTCATTAAAAGCTGTGAAAAGATTT
TACTCGAGAGTAATCTGCCAGAAGACCTTCAGTCAATAGATTTTCTAGGG
AAAATTCAGTGGCTAGCAAATGAGAAGAACAAACTCATGGGCACCTTGCA
AGATACGGCAATCATAACAAGAGAAGCTGCAAATAAGGAGATTGAGCGAC
TTACTGCATTGATATTGGTAGAATCACAGGAGAAACATTATCTTGAAGAA
GAGCTTGAAGATCTAAGATGCGAATATGCTCAGATTGTTGAGAAGGAATA
TCATCATTCTTCGGAGAAGGATCGAATGGTGAGGCTGTTACATGAGGCAT
CTGGAATATCAATGTACAGTGCAGAAAGCTCTCCCTCTGATTTAGGCTTT
ATGATTGGCCAATGCATTGAAAAAATAAAAGATCAAGCCAGTGCCTCCAT
ATCATCCCATTTGGACGGAGAAATATTTGAAAAAATGCAGAGCCTCTTGT
ATACAAGGGATCAGGAAGCTATGCTGTTTGAGGAAATTTTGGAGGAAGAT
ATACTGAATAGATCAGAGATGAACCAGTTGGTGAGTAAAGTAGCTGCGGT
TTCTCAAGAACTACGTGATATAAGAGACGAGAATGACTCACTGCATCATA
ATCTTTCACGCGCAGAAGAAAAAGCTACTCTCCTGAGGGAGAAATTATCT
ATGGCAGTTAAAAAGGGCAAAGGATTAGTTCAGGAGCGGGAAAATTTGAA
ACAGCTTTTAGAAAGAACTAGAGAAACGGCCCAGAATGACATTGATCGAC
TTGCTGCATCAATTTTAACAGAAACACAACAAAATAATTATCTCCTGGAC
GAGCTTGAAGATCTAAGATACAAATACAAAGGAATTGTGGAGAGAGAGCA
ACATATTTCTCTGGAAAAGAATCAGCTTATTAGAATGTTACACGAGGCAT
CTGGAATAAAAATGATTGATTTAGAAGAGCCACACTCTGACATGGACAAT
ATAGTTGACCGTTGCTTTGGGAAGTTAAGGGAAGAATCTGCTCAGGTGGA
ATGGGAATTATTTGAAAGGATTCAGAGTCTCTTGTACACAAGGGTTCAGG
AGGCCATGCTCTTTGAAGTAATTTTGGAGGATGATATGCTGGATAGGTCT
AGGGTCAATGACCTAGCTAATAAGATATCAGTGCTCTCTCAAGAACTAAA
TGATCTGAAAGATGAGAAAGACAGTCTACAGAATCTCCTCTCACATTCGG
AAGAGAAGATCATTATTTTGGGGGAAGACTTATCATCGGCCACTAAAGAA
AGAATGGAACTTGTTCAAGAGCAGATAGATATTAAGCAGCTTCTGGATAA
AACAAGAGAAGCCGCAGATATTGAGATTGATCGACTAACTTCAGCAATTT
TGGCAGAAACCCAAGAAAAGCATCATCTTGAAGAAGTGGTTGAAGATTTG
AGATACAAATATGAAGGGATCTTACAGAAGGAGCATCAGATTTCTCTGGA
CAGGGACCGAGTGGTCAGGATGTTGCAGGAGGCATCAGGTATGGCCTTAA
ACGATCCAGAGGAGATACAATCTGGCATGGACAGTATTATAAACCAATGC
TTTGTGAAATTAAAAGAACAAACCAAAGTTTCTGTGGAGTCTTCTCAGGT
TGGAGAGGATTTTATCAAAAGAATGCAAAGTCTCTTGTACATAAGAGATT
TTGAGGCTATGTTGTTTAAAACACTTCTAGAAGAAGAGATACCCAATGAA
TCAGAGGTAAACCACCTGACAAATAAGATAGCTGTGATTTCTGAAGAACT
AAAGGATCTAAAAGATGAGAAAGACTCTTTGCTGAATGATCTTTCACGTT
CCGAAGAAAAAGCTACTCTTCTCAGAGAAAAGTTATCCATGGCAGTCAAG
AAGGGCAAGGGGCTAGTTCAAGAGCGGGAAAACCTAAAACAACTTCTGGA
TGAAAGGAATGCAGCAATTGAAAAATTAAAGCTTGAACTAGAGCAGCAAG
AACTTTCTCTAAATGACTACAGGACCGAGATCCATAAATTGTCCAGTGAT
GCTGATTGTGTCCCTAAGTTGGAAATTGATCTCAAGTCTGTTAAAGAAGA
AAGGGATCAGCTGGAGAAATTCTTGGCCGAGAGCAATAGAATGTTACAAA
GATTGATTGGAACAATTGAGAATATCACTTTCCCGGACGGTCCGGCTGTG
GAAGAACCTGCAGAAAAGGTTCAAAGGCTTGCTTGGTATGTAAGTGAGTG
TGAAGCTGCAAAGACGCAGGCACAACATGAGTTGGAACTAGTAAAAAAGG
AAGTGGCTACCAAGTCTAATGAGTTAGCACTTGCTGCCACCAAAATTTCT
GTGCTAGTTGATGAAAAAGAAGATGCTCAAGGTAGTAAAGTTGCTACACA
AGTGGAGCTTCAGAAAGTCAAAGAGGAGTCGTCTTGTCTTAGCAGTGAGT
TAGCTGAAGCCCACAAAACTATAAAAGCCCTTGAAGATGCAATGTCTCAA
GTACAGACAAACTTGTCTCTGTTGGCTGAGGAATATAGTACGGCAAAAGT
AAGCAGGACTAATTTGGAGAGTGAGATAGAAAAGCTCAAAGAAGTAGCTG
GCATGCAAGCGCGTGAGCTTGCAGATGCCTCCTCTAGTCTGAAATCATAT
GAGGAAGCAATTTGGAAAGCAGAAAATACTATATCTGAGCTTAGTGGTGA
CAAGGAAGATGCTGCACACGAGATTCAAGATCTTAAATCTCAATTGAATT
CATGTATGCAAGAGTTGGGGGATAAGCAAAATGCTGAACAAGAAATTATA
AATCTTAAGTCACAATTAAATGCATGTGTGCAAGAATTGGCTGGTACCCG
TGGTGCCAAAGGAATTAAGTCTCCTGAGCTCTATGGTCACCTCAGCAGTC
TTCAGTTGCTTCTGAAGGATGAGTCAATGTTGTCCTTACTGAGACAGAGC
TTTCAAGGTATATTTGATGGCCTCAAAAAGCTTGATCACATCCTTACTGA
CACAAAGCTCCATTCGAATGATATGGAAATGAATATTCAGCAGACTTTAC
CAATATCCGAGGTACACTTTTACTCATTAACTAGGCTCTCGTGATTAGTT
ATGTATTGAAACATATTTCTCAAGGTTTTTTCATCCTAAAGTTTTGAATT
TCAATAAATTCCACTTGGACTTTATTAATTTATTGCCAACTCCTTGTTTA
ACTTCAAAGTTAATGAGCAGAAAAGAACCCTGCTTGAATCATTCCTGTAA
GCAAGGTCATGACATCCAATAACAGCCATTGTGGATTTTCTAGAAGTTAT
TTATATGCCGTTACCTCCTAAGTTCATATTCCTTTTTAATACCTATTCTT
CAAAGGTTTAGAAAGCCAAAGAATAGTGAGATTTTTATTATTACATATTG
TATTCTCTTTTCCCCTTTCTTCTACACACACACATGTTTACTCTAGAACT
ATATACCACAGAAAATTTCTTCGTAGTCTACAGAATGTTTCTAATTATTA
ATTCTTTGTTTACCTCATAGGAAGATTCAATTGCTCTGAATCAATTCCCA
GATGACATTCAGAGTATTGAGAACATTGAAATGGATGATGGAGAGTTAAA
TACTGCAGATGATGACAATTTTATCTCACGTATTGAGAAAACAGTGGATA
ATCTCCAATTGAAACACAAAATTCTTGCAGATGTATGTGTAAGAAGTTCT
TCATTCATGGATAATTTGATTGCATCGTTATCAACGAAACTGATGGCAAC
AAGAGATGAATTCCTAGATGTATTGGAGCAAATGAAAGCTCTAAAGAAGC
ACATAGAAGGTATGGAAATGGATAAACAAGCGCAAGATCAATATATGGGT
ACAGTAGTTGAAAGTTTACAGAACAGTTTGAAAGAAAGCAGCACTTCTTT
TAAAAAAGTTGTAGAAGAAAGGGATATCTACCAGAGCCGAGTGTGCAAGT
TGGAAGCTGATCTGGAAGCATTCGAAATTCTATGCAGTGATATGAGGCAT
AAATTAGGGGAGCATCAAGCACAGGAAAGCAGGTGGCAGGAGAGAGAAAA
AGAACTTATGTCATTGTATCAAAAAGGTACCATGTTCGTATGATTTGAAA
GCGCATGTAAACTTTGAAAACTTGAAATGTTCCTCAACTATAAACTCTTT
TTTTTTTTTTAATTCTTTTGGTTCATATCAATCTTACAGAGACTGAAGAC
CCTCTTCTATCAGCATTCCAGTTGAAATCTCTTTTCAAGAAAATAGATGG
AATCAATATCCCGTTCTCAGAGTTTGAAGTAGACGAATTAGAACCCCATG
ATTCTGACCATGTTAAAAAGCTATTTTACATAGTTGATTGTGTTGGTGGA
CTGCAGCGTGAGATGGCCTCCATATCACACAACAGCGAACTACAGCAATC
AATTATTAAGGATCAAGCTACAGAAATCGAGCATCTGAAAGAGGAAGCTT
CAGCTTTCGTTATATACAAGCAGGACTATGATAAATTGAAACATGATCTT
GCAAAAGGATTAGAGAACATTATTAAGAAGTTAGCAGGTAATGAGGTGGT
CGGAACTCTGAAAACTGCTGATGTTATGGAACAACTGCCGTTACTGGAGA
AGCTAGTTACAACCATTATTTTTGAATCTGAAAACTCAAAATCCAAAGCC
CAAGAGCTTGACACTAAGATTTTAAAGACTCAAGAGGTTGTTGATGAGCT
ATCAAGTAAGGTCAAATTCTTCGAAAAAAAAGCTTCATCAGGCTCTATTC
AAGAACGTGGGAGTTTTGAAGCTCATTCATTGCCTCCCCGGTCAGAAATT
TCTGAAATCGATGATGCGGTAATTATGATCAAGTCACTAAATCCTCAAGT
AAAATGTGTATTCAGTCACCTCTATCTAATCTGCTTGTCAGTTGTTTCAC
TAATATTAGTTTAATAGCTATATTTCCAAATTCAAGATTAAAAAGAAACC
TATATAGTTGCATATTTATAATAATATTATTGAGAACCTGAAATTTCTTT
TTCACATTTTACATTGTTTTGTATCATAGTTTTTCTTTCGTACTAGTGCT
GTAAAATATTTGCAGTAGGCAAGTATATGTTGCCGTGTGTGTCACTGTTT
GCATTCCATTAATTGAGAAACAGTATATGAATGTATATAAAATGGAGATG
GTTTAGTTTAAGTTGTCCAAGTCTCCCTTGGTATTTTTTGACACAATATA
TGTTTTTTTTAACTTGCATCTGATGTTTGTTGACTTTGTTCTCATGCAGG
GGCCAGTTGTAAACATGCCCATTCCACCAGGTCCATCAATTGCTCAAGTA
AGAAGTTTAAAGAAGGGATCAAGTGACCAACTAGCAATTAATATAGACTC
AGAATCTGATCGTTTGATCAGTAAGAAGGATACCACTGAAGATAAAGGTT
TGTTTTTACAGATTGTTAAATTTCTTATTCAGTCTAGTTTTAAAAGGAAT
GCATTAAGCTTCTTCATATTGCAGGTCATGTGTTTAAGTCACTAAATACA
TCAGGTTTGGTCCCAAGGCAAGGGAGGACCATTGCAGACAAAATAGATGG
GTTTTGGTAAGTTGCTCGTGCCTCTTCCCTGTAGCTAGTAGTTTAGTCTT
TAATTTCTTTTGCTCTTTTATCCTCTGTTTTATATAGGACATAATTTAAC
TTGAGACAATTTCACCAAAAATGACTTGACTCACGTAATGTGCAGTGGAT
TGTGCAAAAGCTCTTGATTGAGTTGTTTATAGACGCACAATTATACTTAA
CTCTGCCATCTAGACCTTATTGTTTATTAGTTAGACTGTTACAGTATTAC
CTCAATTACAAAGTATTAACATGGCTTTTCTTATTAAATTCAGGGTAGCC
GGTGATCGAGCTCTTATGGGTCGTCCAAGGGCAAGAATAGGAGTTATTGC
ATACTGGCTCTTTTTGAATATATGGCTGCTAAGCTACATTTTGTAACATA
GCCTACAATTACCCTGCCATAGAATCAAATCCCAGTTCCTCCTCACACTG
TAATATACATATAGTTGATGATTGGTATAGCTAAAATCCGACACTAGGAT
ATCCGTCTTTTTTATTTAGTTAGCTTCCAATCCATACCATTCATTGTGCA
GATATGTAATAGATTTTCTGTCAAATTACATTGTAGCAATTCAATAAATA
TAAAAATGTATCATTTTGAACA