| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017388094.1, is a part of gene, LOC108215589. |
| The genetic_marker, MK004469 K1913, is located in gene, LOC108215589. |
| 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_017388094.1 | XM_017388094.1 | mRNA | DCARv2_Chr4:6512065..6520770 |
CTTGACTTGGGAAGAATCCAAATTCCTATGCAATTTGATCCTCCTCTTCT
CACCACAAAACATCTTTTTCATCGCAATTCTTCATCTGGGTACTCTTCAT
TCCTCAAGTTGGGGTTTTCTGTAAGTGTGTTTTCTCCTTTCTTTCTTGCA
TTATGTATGTTTATTTCATGTGTGTATAAGACCACTTTGATGAGCTATAA
TCAAGATATACACTGCATAAACTGTAAGAAAAATCTTAGCTTTCTGCAAA
ATTTGAGTAAAAGCTGTACTTCTTTTCATTTTTTTTATGATGAACATTTG
AGGGGAATTTTGTATGTATATGATTTTGTGTGTGTATATGAGCCCTTTGA
TGAACTCTCAGCAATAATTAAGATATACTGCATGAACTGTAAGAAAAATC
ATAGCTTTATGCAAATTTGAGTAAAAATTATATCTTTTTTCATGTTTTTA
TGATGAAAATTTGAGGGAAATTTTGTATGCATATGATTTTGTGTGTATAT
GAACTTCTATAGTGAACTGACAGCTATAATTGAGATATCCCAACTTTTTG
CTGATGTTCTTGTGATTTTCTTGCGGTATATATGTATGTTATGTGTATAT
ATAAACCCCTTAAATGAAGTGAAAGGTGTAATTAAGATCATATAGCGAAT
TTGAAGTATTCGGGCTTCAAAAAGGTTGAATTTTCTCGACTTGAAACCTT
AGATGATTCTGCTGTAAGAAAAAACTTGGTCAATTTTGTGGAGCAAAAAA
CTCATTTTTTAATGATGAAAATGTTTTGTAAAAGGGTGCATGATTGGTGA
TAAGAGGATAGATGTTGTAGTTATGAATGATAATATGAGATATAGGTTGT
TCGATCGTGCGTTCTGTCTATTTGGTGGGACGACCCTTATATTGTTTAGA
GTGGTAAATTATTATTACATTGTAATAAAAAGCTGACGTTTAAAATTTGA
ATGTTCAAGATATCATATGTTATTTTCTTGTTTTGCATTTTTGTGATGAA
ATGTGATATGCAATGAACTAGGAGATAAGATAAAAATCATGTAAAACTGT
ATGTGATAAGTTGAAATTTGTGTGCAGTTATATTCTAGAACACTGTCTTT
TAGGGAAAGTATTGCGTTGAAATTAATTCGATAACCTTTGTGATGCAAAT
GCAATTAACTGATATCTTTTGATGCTGGAGCGTATATCAAAGATAGTGCT
GGACTAAGCTTACATTATTTTAGTAGCATTTGTCACTTACATATCTTGCA
GTAAAGGTCTTGTTGACCAAAATATTGATTTGACCTTTCGTCAAAAAAAT
ATTGATTTGACACTCATAAGACGAACACATGATCAGTCATGTGAATGACC
AGGATTTTAGTTGATTTTGACAATCCTATTAGTAGCTAATCTTGATTATG
AAACAAGTACCTACTGAATCAATAACTTTCTCAGGATGTCTGGAAAATAA
TATGAGTGATTTATCAAGGTTATCTGAATGTAATTTGTTTCAAATAACAG
TGATTGGAAAGCTTAAGGGGTGCTATTGTGGTATGTATTTCAGTTTCTCA
TAGTGAGGTAGGAGAGAGAGAGATTTATTACAATGTAAGAGGTTGAAAGT
CGTATATCTCGACGAACTGGCTTTCTCTTTCTTGATTACAATGAATGAAT
GTTCACGTCATTACGTTACATCTACATTTTATGATTGATATTTTCTTTGT
AACCTTCTATTTGCCACAATTTCTGGAACCACATGAATCAACTTTCTCAC
TAGTGCTTGGTATGTAGGAGAATCAAAAGGCTATAAGTTGAATTTTTTTT
CCCCTTATTGTTAGAGTAATATCATATCTGTATCTTCTCGCTTTCACATT
TTTTAGTGGCTAAATTTAATAAGTGTTGTTACAGGCAAGCTACACTTAGT
GTCCTGAATTCACCTCTATGGAGTGAGTTGCAGTATGGGTCCTGATCTGG
AGCTTAAAGGAAGATTAGGCAGCATGGCAAGTTTGGATGGCAAGGAGAAT
GAAAAATCTCATGGACACCCAGTAGCTAAGGATATAAGCTGTAAAAGTAA
TTACCAGGATGACATTTTCAAATTGGAAGCTTTGATGCCTAAACAAGCTG
AGCAAGTGAAGCAGGTTGAAGAATCAGAGGTCAAAATTACAGAATCTACA
TCGGAGGACGAAACCGAGATCTCAAGTTCATTTGGGAACGCTTTATCAGG
AGATAAGGCGGATGAGGCTCAGAGTGATTCTGAAGTTATGTCAGAACTAA
GGGACAATGGATTTGACCAAGAATGTCGAATGAGGTATTGCAATTGTGTC
TGCACTTGTACAGATTTTTCCAAAATATTTGTAGTTGTTGAATCTCTCTT
CTGACAGTGGTAGCAAATTGAAAAATTTACTCAGCGAGGCCATGGTGTTT
CAAATAGACTGTTTACTACAATGTTATCTTGCAAATCATTATTAACAATT
TCTTGTTATCTGGTTATATATGGTGTAGAGTTGTGGATCCTCCTAAATCT
GTGATACTGTGGATGACAAATTTTCATTTGTTTTCATGGTTTTTTCCCAT
CTGTTTCTCTTATGCATAATTTTCTTTTTGGTGTCATTGAATATTCCTAT
CAAGGTATGGCCCGTATGGGAACTAGGGAAGGAGATAATTCTTTTCTGTT
TTTATCTACTCCTATTAATTTATACTCTATGTATTCTATATTAAAAATTC
AAAATTTAAATTCATAACATATTTAAATATATATATGTAATATTATTTCT
ACTTTTGGAGATCATTCAATGGCCGCCTACTTAAGTGAAAAACAAGAAAA
TGGATTCAAATGACTAGCAATAATAGTCAAAAACTACGTATATAGTTATA
ATTGAAAGTTTGCATATTATTCCATGAGCGCAATGTAATCTCGGTAGTGG
GCGCCAACTAGTGCATGCGTTCTGGCTCATGCGCAGTGCCTAATAGCCTT
GCACAATACAAACAAAGATTCAAGTAAGCTTTACCATATGTCATAATTTG
ACTGCATGAAATAGGATTCAATTGCTGATAACTTATCACTTGAATCTTTC
CTTTTTTGGCAAATTTAAAGAATGTTGATGTTTTATATTATGTTACCCAG
GCTCTTCATTTTAGCTTGAGTACCCTTGTTGGACATAGATATAGACACTC
CTTCTTGGTTTAGGTTAATATCGTCCAAAATTTCAAAATAAAGCGGGGTC
CCACCTTTGGACGCTTATCTATGTTTGACATTTCAGAGTCCGGGAAATAT
ATTTTTTTTTTTTGCATAGCATGATTGGTATCTTGATAACGAATTCCTAA
ACTAGTCTGTTGCTTAATACTCTATGTTGTTTTGAATTTGCTTTTGTGAA
ATATTCCAATTGCTATTATTACTTTTTTAACCTATGTTATGATTTTCATG
ATTGTCTATGTGGCTAGTTGCGCAGAAATCAAGCATTTAATTTATAGAAA
GTTGTTTTATATCAATACCCTATGGTTAATACTTAATGCAGGCATAGTAT
GTAGTCTCTCACATACATTCTATGTTTTCGCTGGTAGGTAATTGGTAAGT
CAACCATGGGATATTTGTGTAGGAAATCGGCAACTCTACTCAAAGTTACC
TATATGATACTCCAAAACTATACCGATGCTATCCTGCTACTTCCCCTGCC
CCTCCTTTTCTCTGGTCTATGAAGCCCATTGATGTACAAATCAACATATA
ATTCTATATTTTAACAATATGTCTGTCGATAAATTTGATATGATTTCTTT
GCTGTACTAAAGTCCCGGAGTCTGCAGTCTAGTTGATAGCATTTTAGCAT
TTTGGTTATGCTGCGATTTTTTTCTGATTTTTGATACTGCATGCTATACG
GACTGATTTTCTAACATGCTTACGGTTCTCTGTGTTACTTTGTTTCAAAG
CAATATATTTTAGCAATTATTATACAACTCAACTTGAGCATCTGCCTAAT
TAAACTAACACGCTTTGTTAAAGCCTTTTTCCCCTCTATAGAACTTTGAG
AGTAACTACTGTAATAAAGTTTATCAATTGTCTACATTTTTTTATTGTCT
TATAATAATTGCACTTGTCCTAACTTTACTGATTGCAAATACTTGCTCAA
GTCTGATACTTATTTTCCTTCTTCAAGTAATTCATGTGTTTTTCTGCTCC
CCAGGAAAAAAAGTTTGACAGCTCACTGGAAAGCATTTATACAGCCTCTT
ATGTGGAGGTGTAGATGGGCAGAACTTAAAATGAGGAGATTAATGTATCA
AGCGTCAAAGTATGACTTGCAAATTGAAGCAATTGACAGAAGGAAGCAGT
TAACATGGAAGAACGCGACAGTTGAGGATACTTGTGCAAGATGTCTTCCA
TTTTCTGGTAGTAAGCAGAAAGGAACAATAATCAAGCGAAGGAAAAGAAA
ATGGGTGGAAGACTCAACTGGCAAAGCAGCATACACGGCACAAATCCCTT
TATTCTCTTATCCTGGTAGAGCTTTTTATGTTATTAAAGTTTATTTATCT
CATGTTTGCCAAACCATATATAGAAGAATTTTGTATACTTATTATTATTT
TGATTTGTTCCTTACCCTTTCTAGTTATAAATTTAACAAATCTTATGTTG
CAGCTAGTATGAAGCGTGGTGCTGATGTGGCTGCTTCTCTAAGTGATAGT
GCAAATACAGGTTGGCAAGTTAACCTTTTCCATTGATGGTTTTTATGGTT
CGGTTTGGTTAACATTTCACTAAAAAAGATATCACTATATAATTATTAGT
ATTCAATGCCATGATCTGTACTTTCTTCTTCTAGTAATTATTGTTTTGGA
TCATTAACGTTGGAAATTAACCTTATTATTATTATTTGTACTTAGTCAAC
TTCTATGGATAACTATCATGTATTCGAATGTCACTTATTTATGCGATGTT
TCACTGTTTGGTACTTGGTTATTTGACTGGCTAAAACAAGTTAGCTGGCC
TGTGACGAAGATTGGTTTTTCCTCCTAGTTGAATGGAATAGACATAATAC
AGGCTACACCATAGGCCCACAGCTGGTTGTCCATTGTTTAAATAATGTCT
TATATTATTTATACATATGTGGATGAAACTGATATATGGATGCATATACC
CAATATCATTCAAAAAATTAGGAAATTAGCTTAAAATGCAACATTTACAA
ACTAGCAAGTTATGTGAAGTTAGGTCTAGGGGTCCTTATGTAATTCCTAC
TAGTTCCTATTTTATTGTAATAAATTTGGCACTGTCTTCTAAAGGCCACT
ATAGACAATTTTTTATTAGTGTGTTTCAAAATTACATGAATTATTTAAAT
TCTAAATAATACGTACATTACATATATAACTATCATTCCAAAGTAATTGG
CTATCCAAATTTTCATCTAATTCAATAATTTGGAACTACTAGCTTATCAC
AAGACCAATAATAGTAGAGCCATATTGTTGATAGTATAAAAGAAAATAAC
ATTGTTATGATAGTTACACTGTACTATTTTAGAATAGATAAACTTTTGCT
TAGATTGTAAGTGTGGCAAGAATTGTGTATGTGCACAGTTGGGTTATTAA
GTACACCCTTGAAACAGGCAATTTGAAGGGACTATTTGTTATTAAGTGGG
CTTTAGAAATCCCATCCCTATATATTATAATTAAAAGCATTAAATACAAG
TATATTCTACTATATACGATATGCAGCGAAACAGGCATAATAGCAACTTA
TTTCACTGTTCAATTGAGTGCATAAGCATCTAGGAAATAAAGCATACAAT
ATAAATAAAATTATAGGTATGAGGTGAATTAAATTCTTTTACAATCTTTG
TTTCCTTTATTTACATTAGTCATGTTAATTATGGTTGCTGTAAACGAAGC
TTTGCATCTGGAAATAGTAGCCTAGGGGAACAACTGTTCTTTTAATCATC
TTTCAATAGTGTGTAATCTATTTTAGCTTTTGTAGTACATAGTTACACAC
ACACACACACACAGAGAGAAAAATAATCAAATAGAAACTAGAAACATGAG
TGATCACTGCACTTATATTTAGTGATTATCGGCCATTCCCATCCACCCAT
ACACACCTACTGCCTGCTCCACCACCATTCCCTATGCCAGACCCCTCCCC
GTCGCCCCCATCCCCACCGCACCCCACCACTGCTCCACCTCGCGGCCCCT
GCCCCCTCCCTATCACCGTCTCTTCCCCGACCCCGATTTTCCTCCCATTT
CCGGCGACCTCTGTACCTGTCCAGCGAGCTCATCACTCTTCTTATTCTCT
CGATCTATATAATTTTCAACTAAATCTATGCACTTGTTATATAATCTTGG
ATAGGTCAATACTGCCCCTAGTTGTGTTCAATCGGCAAAATTTTATTGTG
GCCGGAATCATTAATGAGGGCCGAAATGAGTGGCGGTGGTGGTGATTGGA
GGTTGAGTTGTATATACGTATTGATTTATCTAAAAAAGCTGAATACTCAC
TAAATATTACTGGTTTCTAGTTTCTATTTGACTTGTGTTTTTCAGCGGAG
TAGGACCCTATATATATTTGAGATTTCTGATGAGTTAAGGCAACCAACAA
AAAGAACTTCACGAAGAATAATCTTTCTTTTAATTACGTTGTAGGCAACT
CTGTCCGGATTCTATTCTTAGGAGTAACGGTATATTTTGTGTAGATCCTA
TCCTCCCCAGATCCTACTCTCTGGTGGGGCATATTGGTATATGTTTGGCT
TAAAACTATGCTAGGGGAACCTGCAAACATTAACAGACAAGGACTACATA
ACAAAATCATGTTTGTTGACTTGAGCTGATTTCTAAATCACATAAATAAT
TTGTTGTACATGTTACTTGATAAGGTAATCCAAAGAGGAAAAGATCAGAA
CTCAACTTTCCGTCTGGGTGTGGTGATGAACCAGTATCACTTGAGTTCAG
AAGTGATGACAATTCTTTGGAACAAATACTTTGGAAAATTGGAGTCTTAC
AATCAGATCTTGGTGAGCTGAAGACCAGATTAAAAAAGGTACAGGATGAA
AATGCTAAAGACATCTATTCAGCTGATGCCATGAATACAAATGCTGTACG
GACAAGCTCTGCCCAAAATGATGTTCCGACAAATGAAGGGAGAGAATTGG
TAAAAGTTTCTAGTATTGCGTCTCGGCATATGCCCAAGTCTAATATGTTT
ATGGTTAAGAATGAAACTGCAATTTCAACTCATGGAAAGGCTACCAATCT
TATTGATATCACTGAATGCAACAATCAGCTCCAGATTGCGATATCAGGTG
AAAAGGTAAATTACCAAGTTTGTCTCTTAATCATAATGTTAGGCTGCTTA
CCTGTTGTTCCATACTTCACATTGAATAACATGCTTTAGGAGTCTGGGTA
TAAATATGTTACTGAAATGGCCTATCTCTATTGTTCAGCACACTATCACT
GGTGATGGGCTGATCACATAATAGGTGACAAACGAAGGTTGCTGGTTTAA
TATATGCAAGTAATAAATACTTCACAAATATTTAAAATATAGAAAGACCA
TCAACTTATTGTAAGTGGTCAGATTCATTAAATATAATGTCACAGTTTTT
AAATACTCCATAGGACTATCTTAATTTGGTCTTTATAATAGTCTAGTGCC
ATTGGGATCTTTAGGTATTAAAATTTGAAAAAAGGGACTATTTGTTTCCC
AGAGTTAAAATGTCATACTTGTTTAACTACCCCAGTCTTCGAGAATGCTG
GTTTTTTTTATCACCCTTTTCTTCATTAATCATTTAAGATTTAGTTAAAA
CTGATTGTACATCTATATGGGCAGAAGGGAAATGGTCATTTGATGTATAA
TAGCACTGCAAAAGAGCTGAATAACATCGAGAAAGTTGATAGCAGTGCAA
AAGAGCTGAATAATATTGAGAAAGTGGGGGTTCAGTCCCTAGAGAAGCCT
GACACAGCAAAGGAAGAAGAGCAGGCGAACATTGTTCCACCGGTTCTCGT
GCCTTTAATCTCAAACTCAGATGATCAGCCTGAGACACCAATGGAAGCAA
AGCAGGCGAACATTGTTCCACCCGTTCTCATGCCACTAGTGTCAAATTCA
GATAATCAGCCGGAGACACCAATGGAAAAAGAGCAGGCAAACTTTCTTCA
TCCGGTTCTCGTGCCAGTAATCCCAACCTCAGATGATCAGCCTGAGACAC
CAATGGAAGAAGAGCAGGCAAGCATTGTCCCACCCGTTCTCATGCCAGTA
ATTTCAAAGTCAGATGATCAGCCCGAGACACCAATGGAAGAACAGGCAAA
TATAGAGCCGTCAAGTCCAGTGCCAGTTATCTCGATCGCTAATGATCAGT
CTACTCGTTCCATATCCGGGCTTACAACCTCCCCACCCAATACGAGAAGT
AGGGGACGCGGACGTGGGCGTAGTAGACGCAGAGGTAATAGATGGAGCCG
CAGAGCCTAATAAGCCCCTCTTTCCTGTACATGTCTCAGGATCCATTAAA
GCATAAATATAATTTGCAGCTCCCCTCTGCTAGGTCTCTTAATATATAGA
AGAGCTGTTGTGAACAGCACCGAAGAATATAATACTGTGTTTTTACCTGC
TATCTTGTGGTGAACTATTTGGTCTGGCAAGCAGGGAAGAAAGAGTAGAT
GTTTGAATGCCTCATTAAACTTCATGAAGTATATGAGGTGCTTCTATTTA
TATTATAATGATCTGGGGAATAACTAATATAACAAATATGCATGGTTTTG
AACTA