| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017367808.1, is a part of gene, LOC108199819. |
| The genetic_marker, MK018942 8_26361627, is located in gene, LOC108199819. |
| The genetic_marker, MK018944 8_26361762, is located in gene, LOC108199819. |
| The genetic_marker, MK006154 K3598, is located in gene, LOC108199819. |
| 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_017367808.1 | XM_017367808.1 | mRNA | DCARv2_Chr8:26361375..26370384 |
AGTATATTCTGCTGAAACAGCTTCAGACTCGTTTATTTCTCCACGGCACA
GTAGTATTACTATTTCTTCCTTGTTTATGCGCTCCCATGAACTCATCAAT
CAAACTAAATCAATCCCCAATTTACTCTAAAAAATCTCTCGATCAATGAC
CTTATCGAATAATTAATCGCGATTCCCGAGGCCATGGAAACAACCGCAGC
ACAGTTCCCTAGGCATCATAATCACCACCATCACAATCACAATCAACAAC
TTCCCCGAGTTTTTTCCGGCGAAATGATTGCACGGCAACAACACTCCGAC
AATGACCGCAGCAACGATTGCAATCTGACGTCACTCTGCGATCATGTCCA
GTTAGAAGGTTTCAATAATGGCACGTTCTCCGATGTTGTTGTTCATGCTA
TGGGCTCCACTTATCATCTCCACCGCCTCATTCTCTCTCGCAGCTCCTAC
TTCAGGTCAATTTTAGCTCCAATTAGATTTTTCGGGTTCGATAAAGTGTT
GCAACTCGTTATCCTAATTGTAAATTTTATAATTGTGAGAGTGTTTGTTT
AAATTGTGATTCTCAATTATTGTCTCTGATAACTCCAACTTTATGCTACA
TTGATTTTTTTATTTACAGATATATGTTTTTTTTTGGTTTTATCGGATAA
GTAGAAGTTAGGTTATTGTTTGATCTAAGTAGAAATGCACTGAATTTGTG
TGATGCAAAGTACCTGTTATTTATAATGATGATGTGGAATTGTTTAGGTT
TTGGAATTGATAAACATTTTTGCGTGTATAATATGTACATATTTTGTTGG
AAATCAACATTTTTGGCTTCGTGCAGAATGTGAGTTTGGCAAGTATAGGA
AGTTGTTAGGAATTATGGTAATTTGAGTTAGCACTTATCTGGACAAAAGT
AATGCTACGTACCCCAAATTTTGTTCCCAAGCAGAAGATGGCTGATTTTA
ATTGGATGGGTTATGTGCTTATAGGGGTCCCAATATTATTAGTGTTTGGA
ACTTGTGATACATTGCCAACTAGATTTTGGAACAATTTTTGGGGTACCTA
GCATTTTCGTTTAGACAATAGGGTGGTCAGGCACACACCTAGGCGTCTAT
TTAATTTTCCCTATTTTTTTGACTGATCTGGTATGGTAAGGTTCAGCTTG
TTATCCTTCAAATACTGGGTCTTTTCCTTTAGTATTAGTTTTATGTTTAT
TTAAACAAAGATTCGTGCCTGCTGTTTTGTACAGTTTGTCTTCGATAGGG
TGACAGATATATGTTTTATTGGAGCAAGTCCTCCAATATTCGAATTATTA
TTGGAGGGAAATTATTAAGAGAGAGGAGAGAGATGTGTTGAAATGGAAGA
AAGCTAATTTTTTATTGATAGAAAAGGTTTAGGGCATGCATAGTGGTGCC
TCAAAAATAAGGCACTTGTTAGATGTCCTAGTGTTTTAAGGCACCACTAG
GACATTGTTGGAGCACGCATTTGCTTCAAATGCCATAAATTTTGATTCAG
GACATCAATTTGCACTGTTTCACTGGCTCTTATATTTGTAAGTCACTGTT
TGCTGCAATATTTTATCGATAATGGCATACATTGTTACTGCAGAAACATG
CTTCATGGACCTTGGAGAGAAGCCAATGCTCCAGTTTTGTCTTTGCATGT
GGATGATAACAATGTTAATGGGGAGGCAATTGCTACAGCTCTGGCATATC
TTTATGGACATCACCCTAAGCTTAATGATGATAATGCATTTCGTGTTCTG
GCAGCAGCATCATTTCTTGACCTTCAGGTATCCCAAGGTTTTAGGGTGTA
ACAGGTGTTTATTCTTTGATAGAGGTGATTTCAGTGTTAATAAGTTGCGC
TAATTGACCACTCACAAGTGATTGCACCTAAATTGACTAATAGGCTTGAA
GAGGTTCTAAATTCATATTGAGTGAGGGCTATATTTTCAGTGGCTTTGAT
ATATACTTTTAATTTTATGTTCGCAACTTATGGTTTTAATTTTTAAGGTT
TGTCATTCTGCAAGTATAGTTTATAAATCATGTGTGAGATGTGCCTTGCC
ATCCTGCTAACGAATTTTTTTCCTCTGAATTAAATAGTTAGAAAAGGTTG
GAACTTGATATATAAGATTTACCAGATAAGTTCCATCAGTGAGACTCACG
TGTAGTATCCCTGCATATAAAGTTGTACATTGGAGATTAATTTGTAAAAT
GTGGAGTTTATATTTAAATATCCAAAAACTTTACAGCATTTAGATACCTG
AAAATTATTTTAGAATCAAATGTAACCCTGCGCTTCATATTTTGAGTTGC
TGTCTTTATAGAAATCTCTATGAAGTATCATGTTTGACTATCACTGTATC
ACACAAACGTTTTTTGCTAAATAACCATCACATAATGTTACTTCACCTTT
GTTGTGCAAGTAATCTTGAATAATTTCACTTTCAGGATTTATGTGCAATC
TGCACTGACTTCATCATATCTGAACTATGGACTTCAAATTTCTTAGCATA
TCAGGTTAGTAATGGCAGCTACGTCTCATATAGTCTTCTAGGCACATCTA
TTGACCATATTCATCATTGACCTAGGTGTTCGCAGAGAGCCAAGATTATG
GTATACACGGAGAACGTGTTAGGAGTGCTTGTTGGGGATACCTTTGTCAG
AGTGGCGCCTTGGAGTTAAGAGAGGTATGCGATGGATAATGATCATATTC
ATGTTAAGAATTTAGAAATGTTCTTTTTTTTTCGTAAATATTATAATATA
ATGTCAAATATATACTGAGCTAGGAAGACCCTGCACTTCTACTATAATTA
AAGTTGGTCAAGCATTTGATCGATTACTTTGTAGATCTTGTCCAGCTTCA
AAAGCAGATACTCTAGTTTCTGAAATCCAGTTGGCAGTTCTTTTTGTTTG
GTAAAGGTCAATTGTCCAAAATGAAATACTCATGTACACATTCCTCTGTT
AATGATTGAACCTTGTTAGGAATCTTGTATCCAACAAACCCTTAACTTAT
TATTAAGAGAGGGTGACTTCTAGGCAAAGCCTTGCAGATTTTCTATCAAG
TTCTGTTAAGATAATTACTGGCAAATTATCATAAAATAGAATTTCAATTA
ATTAATATTTTTATATGATAGACACAAAAAAGAAGAGATACTCCTTAAGA
TTATCGCTGGCAGATTTTTTTCCAAAAAATAGAATAGTTACTTGATCTAT
GATGGCATGTGACAAAAAAAGAATAGATACTACGTAAATGCTTTAATAGA
TGGACATTTAATTTTCGAAAGCGCCCTGTGTGGAGATAGTAGATGACATG
GACAGACTGGGTCAGTGGCTGCAATAGGTCCTTCATTTTAAGGAATAAAA
TTCCTGGTAATATAGGGAATCCGATTTTAGGTTATTGAACATCCCATGAT
GTTAAGTACCTAATGCAACTATCATCTATAATCCAAGATAGATACCAGTT
CGGAAGTTAATTGAACATGAGAGAAATAAGACAATATAGGTAGATTTAGG
TTATCAACCATGAAGGAATCGGAATAGTTTTCATGGTGTAATATCGTATG
ATAGGGCCACTATCATTTTTGGTTCTTTGGAATGATTTGAGCCACCAACA
GGGTGATGCAGTTATAATAAAGTGGTCGCTTTTTGGTCGCATTACCTAGC
TTAGAGGATAAGTGAGGCGATTGATTAATTATTTTTTTTGTAAAGAGAAA
ATTAAAAAAGGAATCTAAATAAGTTGTATTTTGGACTCATGTAACATATT
AGTCAAACTTTGACCCATAATTTCAAATCTTATACTCAATCTTTACCATT
ACTTATTTCTTAGCAGTTATCCTGGGAAATTGATAAAAATATTAAAAGGT
AAAAAACACTACGATCTATATATGAGGATAAAGAGGAGCATGAGTTTGAG
GAGGCAAATCAGGATAATAACATCAAAGGAGATTATAATGTCGACTTTGA
AGAGGATGCTGTAAATGAATGATGATAAATATATTTAAATGTTTACTACT
TCTGTTTAGTGATTAAACTCTTAAGAGTATCAAGAAGCTTTTGAAATATG
AAGCTTACCCTTTTATGTGTGTACTTATTTGAATGTTAATTGACTTGAGC
ACTGTTTAACGAGTTATGACTTTATTACTTGTAATCTCATTAACTTATAA
ATCATACCTCTATATGTTGGTAATCAGCTAATGTTCATCTTTATTTTTAT
GTTGGATTCAGTAATTATTACTATAATATAGCTGTCATATTAATGTTAAT
TTTACTAAAAATATATATATTTTGGGGCGTCAAACACACATCTTTAATGA
AGCGACCATTTCACCGCTAGCCACGTGATCAATTAATAGATACCCCTTGT
CACCTCGTCTCACTTTTCGTGTTTAATAACATTGCATAATCTTTCCATCC
TTCCATTAAACAGGTGCTTCCGAAGCTTTCCTCTCAGACCTTGCATGCAT
TGCTGACTTCAGATGAATTATGGGTGCCCAGTGAAGAAAAACGGTGAGGG
GCATTTCAATTGTCAATATTCTGATTTTATACTTACAAGTTCGATATCTG
TAAAGGTGTTACAATATTGAATAACTCTTGTTTTATTATTAATTGTTTTA
ACAAAAAAGGTTTGAACTGGCGTTATACACTCTCGTCGCCAAAGGTGCAC
CTTGCAAGGCAGAACATGGAGAGGAAGGAAGTGCCAATCCTGATATAGTA
CCACATACTAGTTTTGAATATCAAAAGTCAAAAGGAAAAGAGGTGGTAAG
TGACAGCTCTAGTATTATATTAGAATCGGACATGGGCAGACTAAGAGTCA
AAGATCAACTTGAAGGTGAAAGTACTCCTGGTAACGATTTGGTTGAGCTT
GCAAAAGGTGTAATTCATTCCTGCAGAGAGCAACTTGAGCCCAGCAAGCA
GCTGCAACAAGCATCTGCATGCACTCAGTCAACTTTGGAGCCAAGATCTC
AATGTAACAATGAACGGACTTCATCAAAAAATTCCTGTTCATATACTGCT
GAAATGAGATCCAACTGTTCATATCTTGAAGTCCCAACCAGTGCCAGAGC
TAACTTACTTTGTAATGATGGTGTTGCCATGGAAGGACCATCTGAAGAAG
GTTCATGCTACCAATCGAACAATAATAATTGGCTTACAGGGGAACAAAGG
CCGTGCAATGCTATGAACTCTTCCTGCGACGGAATCATGTCCAGTGAATG
GGGAAGATGCAGCATGCCTCCTCTATCATGGGGAGGTAGAATTGTGGGTC
GCAGAGATTTAAAAACTTGTGTTAAAGGAATATGTGGGTTGAGTGGAGAA
GATTATGATGCATTTGTCAATATATTCGAAGGAGGCTCTCTTTTGTATTC
CAACATGACATTTGAGGCACTCTTAAATGTTAGAAAGCAGCTTGAAGAAT
TGGGGTTTCCAGGCAAAGCTGTGAATGATAGTCTCTGGCTGCAGGTTTGA
TTGATATTTGTTTTCACATGAATCTCATATGCGAGTTTCACATGAATTTC
ATATACGAGGCATTAGTTGATAAAGTTCCGATTCTAAAGAAAATTGCGAT
ATATATATATGAGAATAGTTGTAGATTATTTATTTAGGAACTAAAGGCTG
GGCACTTAGATAAATAAAATCCATCAAAATGACTAGAGTTATTCTCCTGT
TATCATGAACTTATATTTAAAGTTCTAGAGTGGTCTTGTCTTTTTGTTGT
GCATTGGCTGTGTTTATCTTGAAGCTATCTGATTAATACCTTTTATGATT
ATATCACTTCAAATTTATATGTTTCAAAAAACATTCTGATATTTATTATG
TTTCAAAAAAACAATCTGATTAACAATTCTATTTTTATTTTTTTCTGAAA
ATTATTGATAAAAATATGTATTTTTAAAATTAATTTTGCATTTATATACT
CTTTCAGAATAGATCGGCATTTCTAGTGGTTTATGTCCTATGCTCTTTGG
TTATCAGTTCATTTGCTTTTACGTGATAAGTCACAACTTCATCTGTTAAC
TTTTTTTGTATTGATCAGCCAAATATATGTGATACTGTTTTTGAATAATG
TCTGAAGCTTCAAATTCTTGTCACAATGGAAAATATAACATTGCGGCAAT
TTTTTTTCTTAATCCAGTTCTCCAATCTAAGTTTAATCTTGTGTTCTTAC
TGTGGGTTTTCGTGTTGCTCTGTGGGTTTTTCTAGATGCTCCTGAGTCAG
CGGGTGCTGGAGATTGGTGCTGACACTTGCAAAAATTGCTGCCTTGTCAG
CATGGTGTGTGCATGTAGGCAGCCATATGGGTATTCACGCGGCATTCCTT
CCTCAGGTTATTACATACAAGAGCATGACCAGCATATATCACCAAGCAAT
ATAGGAAATCTGTATGTCACTGATTCTGCTCAAGGTGAAGGCAGTGGGCT
ATTTCGGCCTGTACGGGTGCATGTAAATAGAGGAGGGCCTAATGATGGGT
TAGCTGGTATTGGACGTGGAACTACGTTTGTTCCAGCAGCTGCCTGGCCA
CCTACACGCTTTGTATTTTCTCGAGTTCCTTTTGGTGCGGGTAACCGTAA
CTGCCAGCAGACTCTTGGTAATGATGATTCAGATAATAGAGCTGATCACA
ATGCAGATGGGGTTGGGGATGGGTTGACAGCTTTAGTTGGGCTTAGCCAA
GGAGTGAGCAGCATGTCCAGTGTTCATGGGGAGCAAACAGAGAGGGGCTA
TGAGACAGATTTGCAAGGGGGACTAATAGGTCATTCAGTTTCTGCTTCTA
CAACTCCAGGGATTTCTGTGCAGATGTTGGATTCGCCAGAGCAGGCCATT
GGAGTTGAGTGGGAGAATGCGAATAGCTCGATATCATTGGATATGAAAAC
ACCTTTAAGCCACTTTCCTCCCTTTCGCTTCTCGTAAGTTATTTCTTTTG
TCTGGTTTACTTGCTGATGTATGATTTGTCATTTCCTTTTAAATTAGTAT
TTCGGCTTATGATCCATAAATGATAAAGCAATGTCTATGGTGGATATGAT
GTTGGAAAATATGGTACAGAAAAAAGATAAAATACACACACACACACACA
CACACACACACACACACATATATTATTTTCCCTCTATATTTATAAAAGAT
AGTTGTTGCATTGTGTTTCAACGAGAAATTAGACCACAAATTCACTTTTC
AAGTGCTGGATTTTGGGTGATTTTTTCCAATTGCCTCTATCATTATTTCT
GTAGGCCTGATTTGAAAATCACTGTATTTAACAACAGAAATCAGAAAAAT
TTATTCTATTTTGAAAAATTATGTACATGTGCTTAAGATATGGACTTGTT
CCATGGACAATAACATTGGGACTAAATCTACTTCTTCTTGAACTTCGGCA
GCATATCATAATCTTGTATGAGTTCTGGCAGACAATTATAACTAATGTGC
TAGAAAGAAGCTACTAAAAGGTCTTAAGTTATTTGGTGGTTCTACAGGGT
CGAATTTGATGATGTACACAGGCTTAGTGACGGCCAAGTGAAACACTCCC
CGGAAGTTTTTTATGCTGGTTCCTTATGGAAGGTATGTAAAGAAGAGGTG
GTTAAGTTGCATATCTTGTTTTCGAAGTAGTATTCCTGTTTCTAAAGCTT
TACTTACCTTGTTGATTAATATTATGTGTTGAATCACGTAGGTTAGTGTT
CAGGCTTTTAATGATGAAGACCCCCAAGGAAGACGAACTCTTGGTAATTT
TATTTGTAGAATTAGCCTTTACATAAACTGTAAATATTGTTTGGTTTGGT
AAAAAATTTGTGTGACCTATATGTTTGTTGTTTCAGGATTGTTTCTTCAT
CGGAGGAAGGCAGAGATAAATGATCCTCTTAAAAAGGTTAGAGCACGTCA
ATGACTCAGCAGAGACATCGGATAAAACTGATTTATAAGATCTTTGTTAA
CACAAGAATATTGATGAAGTTTCTTAACAATAGTGCAAGTATCTTTGTTG
ACACAAGAATATTGATGGAATTTTTAACAGTAGTGCAATTATAATATAGA
AGTTCATTTTTAATTAATATTAATTGCGGATGAGATTGCCAATTCAATTT
TGTTAGAGTACAATTATGTGTGACCTGTTAGCAACTATCAATGCCATAAA
TTTACATCTTAGAGATTTAGAATTTAGATGTACACTATATTTTTTATTTT
TCTAGGCATATATTGTTCTAGCAGTATAATTTGCTTGGTATTCGTGATGT
TGATTAGTGGGGTGATTACTAGATAAAGCTTACAATAGCCGCAAACTTAA
TATAATATAAAACAGTGCAAGTGTTCGGAGAATTTTGAATTCAGGCAGCC
TTCTGGCATCCTTTAATCTGTCGTTTGTTGCCATGTGTTTTACAGGTTCA
TATGTATGTGGATACTCGTGAAAAGGTTACAGCTCGTTATCAGGTAATGT
GGTTATTATTTAGGAATTGCTCGAATATTCTTCTTTTGCTAATAATTAAC
CTGTCAGAAGAGAGAAAGTCTTTCTGGCTCTTATACATGCTCCCTTTTAT
ATCCAGCTTATTTGTCCATCCAAAAGAGAAGTGATGGTTTTTGGAAGCTT
AAAACAGAGGGGAACACTTCTACCAAAAGCTCCAAAAGGATGGGGCTGGC
GCACTGCTTTGTTATTCGATGAGCTAAGTGATCTTCTGCAAAATGGGGCT
TTGCGGATAGCTGCTATCGTGCAGCTCATTTGACTTAACACTAGGTGGAT
CAAAGTGCTCTGGATTCCTTTGATGGTTGGTCAAACTGTAGTTGTGCATT
ATCGTTTATTACCCCAAGTCCCTAACCTGTAATGTTTTCTGTGCATCGCA
TTTCAACAGTTTGAGAAAGGAAAAAAAAAGGTAGCACCAGCCATTCATAT
GTTAGTAATCACCAGGTTTAAATTGCAGTTGTAAAAGGTAGATTTAGAAT
GTGTGGATTATTCTGACATGGATTTTGCGAAGAAATCAGTTGTGCTGATT
TCCGTGGTAATTGATGCTTGACTCAGTTTTATAATATACTATCTGTTCCT
TATGGAAAA