| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017373544.1, is a part of gene, LOC108204211. |
| The genetic_marker, MK008636 85036.37298, is located in gene, LOC108204211. |
| The genetic_marker, MK009416 1_49169435, is located in gene, LOC108204211. |
| The mRNA, XM_017373543.1, is a part of gene, LOC108204211. |
| 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_017373544.1 | XM_017373544.1 | mRNA | DCARv2_Chr1:49160740..49170327 |
| XM_017373543.1 | XM_017373543.1 | mRNA | DCARv2_Chr1:49160741..49170327 |
CATGTGAACGCGAGACAAGACTCACAACTCACAACAACTTAACTGATCAA
CTCTTCAAGCTCACGTGTCCTCTTGTTTCTCTGCGAATGCACCCACTCTT
CCTTTTATACACACACAACATAGAATTAAGACTGTTTGGTTTACTCCACC
TCTTCAACATCTCTCTCTTCCCCTCAGGCATTTCGTCATCAGGTGTGTAA
TCAAATCTCTCTCCCACCCAATCTCTCTGCTCGTTGATAATTCTCTCTCT
CCCTCTTTCTCCCTCTCTCCCTCTCCCTCCTCTCTCTCTCTCTCCCAATC
TCTCTGCTCGTTGATAATTCTCTCTCTCCCCTCCCTCTCTCTACCGTTGA
TAATTCAGTCACCTCTCTCTCTCTCCCTCCCTCCCTCTCCCTCTCTCCAT
CTACTGTTGATAATTCAGTAATCTCTCTCCCATTCTCTCTACTGGTTGAT
AATTTAGTCATCTCTCTGTCAATTAATTTCTCTCTTGGCTGAATTTGTTG
TTTGCTATATTCACTGCGAATCTTTGATATTTCAATGATAGATTGAATTT
CGACCTGTTTGTTTATGTATATGTTTTTCATTGAATTATCAGTTCCATAT
TAACTCATTGTTTTGTCATTTGTGTATTTGATTTGATTGCTTCCTTTGTT
AATGGCTCTTAGAAATTACATATGCTTATTAAACTTTGAGTAAGTTAGAC
TTGTAGAGATTGTTTAGATGTTTATGACACATTTTAGTTTTTGGCCTGCA
TCAAGTCGATCTCATGCGTATTGACCTTGTCCCCGTCATAGCTTGTATAT
TATATATTGATCATATTAATCGTACATTTTTATTTGTTGTCGTGTCGCTT
TAATAATGCTCATTGTCTAATTGCTACATTGTTTTGCTTTTTGTTTGACC
AATATCTTTTGAAGAACTTGCAGACAAGAGACATTAGATGGCCTGGGGAA
ACATATATACTCGGCGCGTGAAAGTTTTCACGTTGGCTCTTGTAATGTAC
TTGGACTATAAGGTAAATGAATTTCTTTATTCCTTTTCATTTGCTACTGA
GATATTGAATGTCAAGTACAACTTCTTTTGGGAGTTTATGTAACGTGTCA
TTAGTTTCTTGTCTTGTGGTTGGATTGATTTAGGCTTTGCAAAAGAGAGA
GAAATGGGTGAGTAAATCTAAACGAGATGCCTTGTGGGAAAAGCTTCATG
AGCGCAATGCAAAGCGAGTCCTGAAGGTTATAATTGAATTGGAAGGAATG
TGGGTGAAACTTGGACAGTACATGTCCACACGTGCCGATGTCCTCCCGGA
TGCATATATACGCGTGCTTACGCAGTTGCAAGATTCTCTTCCCCCTCGCC
CTTTAAAAGTGGTAATGCTTTTCAAAAATCTGTTTTAAGATTAATAAAAA
TGTCGGCCTTTACAATTTTCCATACTGAGTTATTGTATTCAGAAGGCAAA
AATAAGTTAAAGCAGAGTTAGGCATCAGCATGTCTTACTTACCTATAACT
AGTGAATGTTATGTTGGGAAAAGTATTTTGCCCCAATATTTAATACTGTG
CAAATTATTGAATAAAAAATCTAGGCGTTTTTGAACTGAATATGAGAACT
GTTAAAGAAACATCGTATTTAACTAATTAATCTCTTTTTTCCTCACAGGT
TTGTGAGACCATACAGAAAGAATTGGGAAAATCAATGGGGGATCTGTTTC
TAAATTTTGTTCAAGTTCCTCTGGCAACCGCATCAGTAAGATCCTTGTAC
CATATAGTATAATATATAGCAGCAATACTCAATCTTTGACCTTTGTGGAG
GTGGTTTCAAGTTCTCTCGGGATTGATTGTTTGAACTGTGACAACGTGGA
GTTTTATTTAGCATGTTGTTTCTCCTCTGTTGCTTTTCCTAATTCCAGAT
AGCCCAAGTTCATCGTGCGACCCTAACTGATGGACGGGAAGTGGTTGTTA
AAGTTCAGCATGAAGGCATCAAGGCAATTATCTTGGAGGTCGCTCATACT
TTTTTTAGTTTTATCCCAATTTGGGCATTATATTTCAATTTGATCTTATG
AATTGATTTGTTGGTATATTTTTGGTGCAGGACCTGAAGAATGCAAAATC
CATTGTTGACTGGATTGCGTGGGCAGAGCCGCAGTATGACTTTAACCCAG
TTATCGATGAATGGTGCAAAGAAGCACCTAAAGAACTGGATTTTAATCGT
GAAGCTGGTGTGTGGAGTTTGTTAATAATAATAATCTGTTGACTCTAATT
TTGTTAATAATAATAATCTGTTGACTCTGATCAAAGCGTCATCTTTCTTG
CCACCTGTTAGAGAATACGAGTTTAATATCCAGAAACCTTGGTTGCAATG
ATCAACATGATGAGAAAGTGCCTGCTAATCACGTGGATGTCTTAATTCCC
GAAGTTATTCAGGTAAAGAAACGGGCTGAACACACAAAAAGTATCTATCA
ACATTACAAATTAAGGAACCCAATTGAAGTGTATAAATATATGTCAACAT
GACATTTCTTACAATTTACGAATTCTTAGTGGTGATTTGGAGTGAAATTG
CAATTCTAACAGTCACTTAAAATCCCTATTGCCCCACACTACATATCTGT
AGTCAAACTAAGAATCCCTATTGACCTACGGTATATATTTATATGACTAC
TTGAATAAATTATTTATATTATACAATGTATTGTAAAACACTAAAACCTA
TGTTTACTTTTAAGTAAAAAAGTATATTTTTACATTTTAGTAGCTGATGT
ATGCATTTACAAATGTATTTTGCCATTTGTTCACTATATAGCTACGAATA
TTGGTCATCCCAACTATTTTCAGCTATTTCTTATTATCATGTTATCATTT
TAAATGTTTGTTAACAATGGCAGTCAACTGAAAGGGTCCTCATCCTCGAG
TATATGGATGGGGTTCGTTTAAATGACTTGGTATCACTTGAAAATTTGGG
TGTTGATAAGCAAAAACTTGTTGAAGAAATTACGCGTGCATATGCGCACC
AAATTTATGTGGGTGGTATATTCAATGGTGATCCTCATCCAGGTACAGTT
TTTTCTTCCCCTTCCTAAATCTTCAGCTAATTTCTTATTGGATTTTTTGC
AGTAACATAGATTTTGTCACATTTTGTTTCAAATGTGCATCTGATTATTC
ACAATTTTGATCGAGGGATCTAATTTTGTTTGGCTATATATCTAGGGAAT
TTTCTTGTCAGCAAAGAGCCTCCACATCGTCCAATTTTGCTTGATTTTGG
TCTTACTAAAGTTTTGACGAGTTCTATGAAACAAGGTTTAGCAAAAATGT
TTCTGTCATCTGTTGAGGTTGGTTATCTTTTACCAAGATAATAATAATTA
GAAAATTGTATCTGCAAGATATACTAGTAGATTACCGAGCCCAAGAAATA
ATTTTCACATGATAATGGTTCATGAAGTTGAGAGAAAATTGAAAGCAGAT
TGTAGATTTACGTTAGGCCTTAATCCGGGATGTCAATTAGGATTCTTTAA
TCAATCGTTTTAAGGCAACTTGTTTTTCTTGAGTATTAACGATTTATTAC
ACCCAGAAATCTGCTGTTGGTTTGTAATATATTACTGTCTGATAGCTGGT
TCGTCATGAGATAAACTTTCTGAAATTGGTGAAATATGCAGATTTTGTTT
GGCAGTTGAATATAGCCCAAGCCAAACTGATAACCTTGTAAACCATTTTC
AAAATCTGTCTCTATTATCTTCAATTTTTCTCCCAATTAGAACTTATTTA
TGCAAACCTCATCTCAATGTTTAATATTTTTCTCCAAAATTGGAACTTAC
CCGTTTAACAAATTTTCTCTTCATTTGTAACAGTAATGAAACAAGTTACT
ATAATTTGCATTGCTCTAAAATGAATTGAGAGTTTAAATAGTACTTACAA
TATTATTATCTTTTACTCGATTCATACCGGAGAAAAGGTTTTTTATTTGA
TTCAATATTGCATATCCATTGAGCATATCACTTTGTAAACTTGGTACTTT
ATAAGTACCTCTTCAGTAGCTATGGTGTCAACTGCAGGGTGATCATGTGG
CACTTCTGTCTGCTCTTGCGGAAATGGGATTTAGATTTCGAATGGACTTG
CCAGATGAGGCAATGGATCTAACAGCTTTAATATTCCGTAATTCAGCACC
TACCAGAGAAGAAGATGTGAGTGACAGTTTAAAAATTGGCATCCATGTTT
ATTATATGCCAGGAATCATAATATAGTTTGTTTTTTCTTATTAAGGAACA
CTTGAAATCTTACAAGGAGAAAGCAAAACTTAAGAAGGAAAGCTTGAAGC
TCAGTCAGAAAGAATCTCGTCGCTTTAATCCTGTAAATATAAATGTCTTT
TTCATTTTTGTTGCATAAACTATATTGTCCATGCATTTGGTACATAAACA
TTAAAGTCTGCCATATCAGTTTAATTTTGCTAAAATATCTGTTCATATTA
AATAGTTTAATAGTTAAAGTTTGTACCAGATGCTGTGCAAGCTTGGTTTT
AACATATTTACTGGAAATTGAAGGAAGCTCAGCTTCATAATGATAATAAT
ATATAAATTTGTATCAGTCTCATTAGACTTGTCCATTTTGTTTCTTTCTT
TCCATAGCCAAGAACCTCATAAAGTTTATTTACAGGTTGATGCTTTTCCG
GGTGATATTGTGATCTTCAGTCGGGTTCTCAATCTACTAAGAGGTCTTTA
AAAATTCTTTTGTGCTCATCTGTGATGTCGACTAATGTTACTGATATAAA
CTGTAATCGATATCTGTTTAGGGCTTTCATCTATAATGAAGGTTCGCATA
AATTATGTGGATATCATGAGGCCGTTTGCTGAATCTGTTTTACAATGGTA
GGTCTGTAATGTCTTAGAGTTTTTCATCTTGTGATCCCTGCCTTCCAATT
AGGTTACATAATTTTAAAACAAGCTGCTTTCAGCAATATTGATAATGGCC
CGAGATTAAATGCGCAATGGATATACAACACTCCTGTTCATTCTGATGTG
GAGGCAAAATTGAGGAATTTATTAGTTGAGCTGGGGAATGCTAATAAAAT
TCTTGGAATACAGGTACATATATGTGGATATATTGATATTGGACATAATA
GCTTACTATTTAATTTTTCAGTTATTTCCTCTGGAAGCCTTTCTTACTGC
ACTCAGTTATAATGGAACATGAGAGACATTGTCATAAGTAGTCAAGATAA
GATCTGTAGTTCTTTCAAAACTGTGAACCATGGATGCAATTGCATGCATA
TTACACATTAAATACTTTAGTCACAGGCTCACAGCACAATTACTCGCATG
AATCTTTTAAGAATCAACAGAATCAATATTGACTATAATTTTGCTGAAAA
TGTTACTTGAAAACGTTATGGAGTAACTTCCTATTTTTGTTGGCAAAGCC
GTACCGTAGTTCTATTGTGTGCCTGATGTTGTAGTCTGGGAGGCATCTCT
TAATGTTGTATTATCGTAATACATTATGTTCTATGTAATCTTGACTTTAG
GTATGTGCCTACAAAGATGGGCGAGTGATTATTGACACTGCTGCTGGTGT
GCTCGGAAGATATGATCCTCGTCCTGTTCAACCTGATACCCTATTTAATG
TGTTCTCTGCAACAAAGGGTATCACAGCCGGAATGGTACATTGGCTTGTT
GATAATAGGTGTGTAATCGATTCTAGATCTGCTCTATTATAACATTTCTT
CAGATCTTTGTTGTGTTATCTGTTAAAATGTTATTATTCTACTATATTCT
AATATGTACTCACCAGTCCAGTTAGTCATTTACATTGCTGTGCAAGAATG
AATGATTACATCTGACATAGCAATCGATATATGTCTACAACAGCTCTATC
TTAAATTGCAAAAATTTTCGATCACTTTTTCAAGTGAATTAGGGAGCAAT
CAGGTCATCTTGACTTGTCCAGAACAGAAGTAAAAATCAGGGCATCTTGT
CCCACAATGATCTTGCCGTATGATGTCCTGACCATCATTTAATTTAGTAA
TAGACTTTAAAATATGTAGCCAACATGTCTGACTGTTAGACAAACTGTTA
CACCATGATTGCCCAATGAACTATGGTAATTGGACGATTTCATTTAAATT
TTGTAGCCATGCTCTCAGCAAGCCTCAATATTTCTTTGAACTGGGGCTTT
CTTCTACTGATATATATATGAAATATTAAGAAGCGAAAACAAGTGCATGG
AGTTCGGGTCTTCTTAGGTGGTTTCCTTATATGATCATTAGTACTCGACC
ATTTTTAAAGTTAGGTACCAATAAAACCATCTGATGGCATTGATTTATTT
TTATTTTGCTATTTTTTCATATTAGTCTCCTTTGAGCTGTCTTTATTTTG
GATTTATCAAATAGAGTGAACCATATCAGCTAAATAACTGTCCTAAAATT
GGTATTGCAGAAAATTGAAGCTGGATGAAAATGTTGCAGATGTATGGCCA
GAATTCCGATCAAACGGAAAAGATGGAATAAAGGTTTGGCATTTTTTACA
CAACTAATATAACTTTTTCATTTGCTATGTGATTTTCCCTATGTCAGGAG
ATTTTTGTACAGAGTACTGCATTTATGAGAGCATGGATTCCTCTTTTATC
ATCGTTGACTGTTTACCAAACTATAATTCCAGGACTAAATTCATTTACCT
CTCTATATTCCATAACCCCTTTTTTGTCTTGTGTATTTAGTTTCCATCAC
TTTTCAGTTCATTAAAGTGAACTGAGGTGCAGTATAATTTGGTTTATGGA
CTTTAAGTATTCGGTATGGTAAAATGAGAACAAATGGGACATTGGCTGTG
GATTATAGTCCGGGGTAAGAAATGTAGCCTGGTTGCTAAAAAAGGACTTG
TGCACTATCTTACCCGCACTTAGGTACGGTTGTTAGACACGGGTGCAGAA
AATCTGAACTTTAGAAGGGCTTATAAAATTCTGGGTTTCATGGGAATTTC
TTAAAATCCAGGCTACAATTTGAATCTTTTTAGATGCTGAGGGGTCAAAT
TTCAATGAAAAATATATGCCCATTTAAGATTCTGAGAGAAGACTGGACCT
TATATAAAAACCCGAGTGCAAATGATGGATTTTCCAGGGTTATAATCCTT
GCAGATGTACGTAGCCTTAATAATTTGATAATTCTGTATACCTTGATGGT
AAGGTTATTGCTGTTTTTGGCTCTAACAGGAGTTAAATTATTAACTGACA
GCGACCTCTGTCTTTTGTTTGAAATATCATTTACGTGACGTTATTGCCTT
CTTTTTTCTGTTTCTGTAGGTGCACCATGTCCTCAACCATACATCTGGTC
TGCACAATGCTCTCTCTGATCTTAGTCGGGAAGATCCCTTATTACTGTGC
AACTGGGATGAGTGCCTGAATCGCATTGCAGAGGCTGTCCCTGAGGGCTC
ACCTGGACAACAGCAGCTATATCATTATCTCTCTTTTGGTTGGTTATGTG
GGGGAGTTGTTGAGGTATTGTTAATTGATGATTCTCACTGACTGGATGGT
TAAATTTGCCTCTCTTTTCAGTTATATACTTATATTTAATTAAATTTGAT
AAAGGATATATGGTCTTCAGTATATATAGTTAGAGCCACAGGTGAGTTCA
TATTTCTTAAAGATCTGCTGATTGGAAAATGATATACTGCCAGAAAACTA
ATTTACATTGACTAGGATGCCTGTATGTTTGAAGCTATGCAGTAGTAAGG
TCTGGTTATATGTCTCCCAAGAGGCATGGGCATGGTTAAAAGTTTTTTAT
ATCTGTATACAGTGTTAAGACATATCTGAGCGGAAAGTCTGATGAAGGGT
TAAATATCAAAGTGGTTAATGAAGTGGAGGTCATATATCACTTTTCTCAC
CAATGTTAATGGGTATCATTTTGATCACTAAAGTCATAATAAATATCAAA
CAGGTACCTCTAAGTATGTGTTCGAGGAGTAAAAATGATATTTATTGAGT
TCTACACATTTTTCTTAAATGTTATCACAAACAAGTGAAAAGTTGTGAAT
TCTCAAATTTTGCTTTCCTTACCTCTGGCTGGGCGGTTATAGTCTGTTTT
GCAATTTATCAGTTTTATCCCGCATTTAACATTTATGTAGGTGATATTAC
CTTCACTCTTTATTGGAAGATCATAAAAACCTGAAAATATTTTTTGGTTA
TTTGTGATTTGATTGTGCAGCATGCATCCGGAAGAAAGTTTCAGGAGATT
CTGGAAGAAGCTTTTGTTCGGCCTCTTGGCATTGAAGGCGAGCTATATGT
TGGAATTCCTCCAGGCATGATGATTTTAACCTGTTAAAGTCCCCTACTAT
ATCTTTTTAAATTCTGTACGCTGTCTGACTTAAATCCTAGGAGAAACCGG
ATTATACCGCGGCCTGGTTATGTTTTTTGTCAAACAAGATAATGTTGGAT
ACTATATAGGTTGTGTATTATCTTCGGTCTTCGGATTCATTACACTCGTT
AATCCTTTGCAGGTCTGGAAACTCGACTTGCGACACTTACAGTAGATACT
GAGGATCTCAGCAAACTCTCTGGAATCGCTAGCCGTAACGACCTTCCTTC
AAGCTTTCAGCCAGGCGATATTCTTCAGATGCTTACTACCCTTCCAGCCA
CATTCAATACACTTAATGTTCGCCGTGCCATCTTACCTGCTGCTAATGGA
CACTGCTCTGCCCGTGCACTTGCTCGTTACTATGCAGCTCTTGCTGATGG
TGGTGTCATCCCTCCACCACATTCCACTTCTTCCAAGCCACTGCTTGGCA
GCCACCCCCATATTCCAAAATTCAGTGCCAAGAAAATTGATAAGAAGTCT
AAAGGTCGCAAGAGCAAGGGAGCCTATGAAGCCTTGAGCACATCTGATAA
GTCTGAACCGGTCACGACTGATGAACATACCATTAATCTTAATGGTAGAG
ATGAAAGCCACATATCCATTGATTCTGTACCTACTGCTGGCAGTAGTCGC
AGCAGTAACAATAATAATATTACTAACACCAGTGCCACTGACCATCATGA
ATATGGTTCCAAGATATTTAATGATGAATCAATTCATGATGCATTCTTAG
GTGCTGGACAATACGAAAACATGATATTTCCAAACGGAAGTTTTGGACTT
GGATTCAAGAGAATCAAGTCGAAGGATGGCTTCCTTATCGGCTTTGGGCA
CTCGGGCATGGGAGGATCAACCGGCTTCTGCGACATGAACAACAGATTTG
CTGTCTCGGTTACAGTAAACAAGATGTCATTTGGGAGTGTTACTGCTGCT
ATCATCAAGTTTATTTGTTCAGAACTAAACCTTCCAGTTCCTGTAGAATA
TTCTGGATCAGGAGGACCTGATATCTCAGCAAGTTTGGAGAAGCCGATTA
TAAATTAAGGAAAATTTTCTTCTCTTAGGCTACTGTAACGATATGTATAC
ACATGGGCATGACCCTAAATTCATCATAGAGGAGCTTTAAGCTTGATACT
CTATACACAGGTACATAGGAATACTACACAATCCAGATTACTTCTTGTAG
CACATTGTAGAATGTTGTTAACGTTGTAACGATGTGCATAAAATTTCATA
GGCTTGATATTTCATCTGTTTCCTGATGATTTGCTCA