| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017367628.1, is a part of gene, LOC108199689. |
| The genetic_marker, MK003547 K0991, is located in gene, LOC108199689. |
| The genetic_marker, MK007887 TP17299, is located in gene, LOC108199689. |
| The genetic_marker, MK019003 8_30059919, is located in gene, LOC108199689. |
| The mRNA, XM_017367627.1, is a part of gene, LOC108199689. |
| 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_017367628.1 | XM_017367628.1 | mRNA | DCARv2_Chr8:30055146..30062195 |
| XM_017367627.1 | XM_017367627.1 | mRNA | DCARv2_Chr8:30055146..30062195 |
CACTCCCACAGAGTTTCACAACATCCTCCATCCCTCTCTCATTTTTCTCT
CTTAAAAAAAAGGAAAAAAACATTTATCTCTCTCTCCCATCTCTCTCCCT
ATTTTTCTTTTTTCTCTCTCAAAAGAAAAGGAAAAAACATTTATTTCCCT
CAATATGTAAGGCCTTGGCCTTGAGATTTGGCCCTTTTCTTGTGTTTTCT
TAACAGAAAAACCTACTGAGAGAATACAGAAGGAAGAAACTTTGAAACCC
ACCTCACCATATTTATCTACACACACAAATCTGTATCTATATCTCTGCAC
TCAAGAACCACAAACGAGCTAAAAGCCCAACTGGGTTTTCATCATTTTCA
TCATCTTCATATAAATCTGCGTCTTTCTTTTGTGCTGTTGAAGAAAGTTT
TGATTTTTTCACTAGGTAAATTTACCACGTTTGTTGTATTCCCCCATTTC
TTTGTGTTTAGATATGTGTGTGTGTGTATGAGTTTTGCCAATTAGGGGTG
TAATTAAGCTTCAAAGTGTGTGGAAAGCACTTTTCTTGGATACCCTAAAG
CTTATTTTCAGCTAAAAGTGCTAATTTGTTCGACCCTTTTGTTTGTTTTC
TTGGAATTTTGTGTTTGGGGATAAAAGTTAAGGTTTTTATGGTGGTGGAT
CAAATTAGTAAAGGGTGTTTGGTTTTGTGATTATTAGGGTTAGGATCAGG
ATCCAGATTGGGGATTAAAGGATTTCTTGGTTTTTCTTATGATCAGGGTC
GATTCGGGACTTGGTGATAGAGTTGAGGTTCTGATTCTTGGTGGGAACCA
GTGGAAAAGAAGCTGAAGATCAGATTGTAGTTGACCCTCTTAGTTTCCTG
AGGACTGGTTTTGATTAGCTCAAGTGTGTGTGATATCACCTCTACAGTGT
GTGTTTGTGACTTTGGAATTGCCCGGTGTTTTAATAGTATTGTGACATAA
GGATCTTGGATTGATGCCACACTGTGATTGTGAATTTAAATTATACCTCA
GGATAGCAGTAAGGTTTAGTTTTGAGGAGTTTGACATTGTGAGTGGAGAA
AAGTGGTAAAAGTTTTTACAGAATCATTGTGAAGCCGGAATGAGCACAAG
GGCATGGTGCATGGTCAAGAATATAGCTGGTTCCTTCCGTTACTGCAACA
TTGCTGCTTGAAAGTTGTAGAAGCACTTTTGTTTCAGGACAGTGTTATAT
TTGCCTCTTGTGATTTACTGTACGATGTCTCGCTGCTTTCCGTTTCCACC
ACCAGGATATGAAAAGAAGCTTGCACCAGAAGTTGCCAACATACTGAAAA
AGGTTCATATCTGTGTTATAAGCATTTACATGTTGCCGTCTGCTTGCAAT
AGTAATGCTCTTTTGGTGTTCGATATTGCATAAATTGGGATATAAATGTA
TATTAAGGAACTGCCTTACATGTTTGTTCAAATTTATACTATAAAGTATA
CATAATGACAGTATACCGAAATCACGTAGTTCCCATTCTGGTCCTAACTG
ACTTCGGTCCTCTACTTAGAAACTTCTTTCTGCAGCATGCAATTATTGTT
CATTTGTTTACTATATGCTTTTGTTATCCATTGCTTTAATCTTTCTGGTA
AAAGCGTGTGTATTCCATTCACTCTGCATTTTGCAATTTCCTCCCAATCT
GAGGGCACATGTTACCTTCTGCCATAAAGACTACTTTTGTGTGCATGGTA
TGCAATACCATGACATTATTCCTCACAAAATCTTAACCGCCCCTCGTTTA
ATGCTTATGAACGTTCATTACTGAACATTTTTTTTAGGCACTCCTAAGTC
CCATTTGTTTTGTCAACTTATAGTTACATAGGGAATTCGCACTGCCCTGT
AACTAGATTACAGCACAAAGTTCCAAGGTAACTGAAGGGAAGTGTTTCTG
GTTCATTATTATGTGAGAGTAAGTTATATATAGTTAAATTTGGTAAGTTA
TTAATGTTTTATCTTTGACAGCTATGTAACCTGTGGTTACCACGGGGGCC
TAGATAACCAAGTTCCCTTGCTTTCTAGTGACTACAAAACACTTGGAACT
TGGAGCTCTCTTGTCCAATTTAAATTTAATGAACCAAACACAATAACCCA
TATTCATCCAAGCAGCTTGTAGGTCCATAGTTCAGTTACATCAGAACGGA
CAATACCCTGATTAACCTAGGTCACAAGCTTGATGCGGAAAGGCTCAGAT
AGAAACTTTTAATCGTTTCTTATACTATTGTATTTAAGCATATTGTGTTT
TCAGTCTCTACATGCTGATATATCTTGTTATAGAAGAATTGACTTCTTGT
TTGTTTCCATTCGTGTAGAAGGTTCATAAATTGAGGATTGCCAACCTATC
AGCAGAGCGTCGATTAATTTAATGGCTCTTGTACAGAAAATTAATATGAG
GCCCTGAATAATAATTATATTTTTATTAAAACAAATCTATATGAAAATGT
TACCATCTAATTATTTTACTAGTACAATATCAAAGTATTAGACTTAATAG
AAGCATGAAGTATACAAGTTTGAGATACTACTGGAGGCTCACACAGCTGT
ACATCAAACTCGAACAGCTTCTGCGGTCTTTATAGATGAAGATAAGTATC
AAAAGAAAATCAGAATTGGGCACTGAATTGGAGTTTCAATTGTAAGCTTT
AGATAGTATATAATCTAAAATTTTAAGGCAAGATGATTGGGAATGGAAAT
TGGCAAATTGGCTTGTGTTGCACCATTAAATCCAGTATACTTCCTGTCAA
TTGTAAATGGAAAGATGCTCAGAAATAGTTGGAGTTTAATGAAGAATAAA
AATTGATACGCAAGACTATATACATATAGTATAATTTGATTTGTATTTAA
TAGGAGCAGAATTACAAAAGAAATTGAACCCTCTGAAATTGAGGGACCAC
CCTAAATCCCGATTTGGCCGGCCCTGACTTTGGAACATATATCATGCTAT
GATTGTGGTGTAGTATTACAGGATAGTTGTACATTTAAGAAATTATAAAC
AATGTAGGGTCTTAATTACTAGATCGACATGTTCAGGAGTGTAGGTAAGT
ACTAATTGCATCGTAGAATATAGCATTCTATTCCATATAGTTTTCACATA
ATTATGGTTGTCGGACTAGATATTGAAAATCGTAGCAAGAATTTAGTGCA
TGCGTGTATCTTTAATCTATAGCTATCCTTCTCAAGTGTTTACCCTTTCT
ATTGCAAAATAACTCTGTTCTTTTGCTAGGAGAAATTTTTTACGTTAGTT
TTGAACCTACCACATATGTAGTGAATGGCACTGTCTCGCATGTATAATTT
CATTAGGTAAATTGAAGGTCAACTACTTGTTTGGGATTACATTAATACAC
TATTGTAGGTCACCGTGTTGTCTGATTCGGATCCATCACCGATAAGTTGA
AAGGTTATGAGTTGCCAATATATACAGCCACAAACCATTTTAAATAGCAA
ATTCAACGAATTTGCTTGTATCTATTACTAAAATTTCCATCTCAGTTATA
CAGTAACTTTCATATATGCAACCAGAGGCCAATGCTATCCTTCACTACTT
GTTTCATGAACTCGACATTATTTAAAGATTGGAATGCTGGTTCTCGCATC
CTTAGTCTACTACCACCCAAGTGTCATGCTTTAGCGCCTTAGTTCATGAT
TGACCGGGTAGCAGGAATCAGGGTACAAGTTTCGCCGCTTCTTTGTGAAA
ATAAGTCATGCACAAGGTATCAATACAAGTGTAAACACCTATAAGTTGAT
ATCTGGTGTTCAGGTTTAAAAGAACAAAGAGGTAACATAAATATTGTAAA
GGGTAGTGTGATGGAAAAAATTGGGAAGGAAGAATATGATGGGTTTAGTT
GACTTTTATTCTCCACGGAGACTCGTACCATGAACTGTTCTTCAAATTTT
AGGTTAGCAGGTATCTTACCTGCATAATTAAAACTTTATTTCAAGGGTAG
TATGCTGTTCTCATTAGTTGGTGGGAATTGAGTACTTGCTATGGATTGAA
TTTGCTATATCCCAGCCAAAAATTCATTCTTTAAAATTCCTAAAGATATT
CCAGTTAATTTTATAGGTCACTTGACATGTGGAAAATAAATAAATATGCA
GTTAACCTTGGGACTTGTCAAGCAGGGTCTTTGTTATCATGAGGGGCTAG
TATAGAATTGTGGAAATCTATGTTCTAGTTAGTATTTTAGAGAGCTGGGA
TTAAGTTATGAATATAATTGGATTTCTTACATGGTGGTAGTGATCTTACC
ATATGTCACTTGTATATATAGCTCAGGTCCCAAGTTGTCCTTGTTTCCCC
CTTTTCCTTTGAAACTGGTCTATTTGGAATTTTTTTTTCTAACTGAATAT
GGTTTTGTGGGTTGCATATGACACTACTATGACATTTGTCTTTGTTTACT
GCAACTCCAGAAATTATCTTTTTTCCTTGAAGCTGGACGTGTCTAACATT
CTTTGTGTGTTGCAGGAGAAAACAAAAGAGAAAAAGCACAAGGAGAAAAA
GGACAAGGAGAAGAAAGAAGGCAAAGACAAACGAGACAAAGAAAAAAGTA
ATGGGAAACATAGAGAGAAAAAAGATAAAAAGGAAAAACACAAGGATAGA
AAGAAGGATAAAGAAAAAAACAAGGAAAAAGACCAAGAGAAAGGTAGCAC
CTCGTCCGAGAAGAAACTTTCGGGGCAGAGTGAGGAGTATAATAGAGCAA
AAGTTCTTCAGAGTGAAAAAGTGCGAGATGAAGAGAAAAAGGAACAAAGC
AGCACCTCAGAAGAAAAGCGACAGATTGGTCAATTTGCTTATTGTAATGG
AGAGAAGCTTCAGCAGAAAGTGGAGAAAAGCAGAGAGAAAAAAGTTACTG
CTGATGAGACGTTTTCCGTGCAGCTTCAGGCTCATACTGGAGGTAACAAA
GCTGTTTTGCATAGTTTTGCTGACAAGGATTCTCAAGATTCAAAATTTAT
GTCGGATTTCAGCAAGAGAATTAACGACGACGGAAAGGGAACAGGGAGCC
AGATGGTTGAGGGATTCATGGATAAGGGACTCAAGAAGGTTGAGAAAATT
GATAAATTTGCAGTCAGAGATTCTAGTACGGTTGAAGGCAAGGAAAAGTT
TAAGGACAAACAAGTTAATAGCTGGAAGATCAATGATGGGCAAAGGATCC
ACCATGAAGAAAATTTCAATGGAAATGCAATGTCTCAGAACCTTTCTGGA
AGCATACAAAATAAATTTGGAGTGCCTCCTAAATCCAAGGATAACTCTGA
GGGAACAATGGGAGGGAAAGAGAAATCGAAAGAAGGTGAAAGAGATGATA
AAAGAGGGGAAAAACGGAAAAGTAAACACAAAGAAAAAAAGAGCAAGGGA
AAAGACAAAAACAGTGAAAAAGAGAAGCGGAAGGAAGATAAAGCAAAAAA
GGATCGTCAGAAATCTGAGAAGGATGATTCTAGGAGTAGCAACAAGAATG
ACGCTGGTACTCCGAATAACAAGACATCTCATTTGCCCAAAGACGACGAC
AAGAATGCTGCTGAGGGTATTCTGAAAAAAAGAAAAGATATTGAGAAAAA
TGGTTTCTTGCCCGGTGAGTTAATTCACATCTTGAACCATGATAATAATA
TCTGCTAATAGACTGTGTTAAGATGTAGTTCGAATATTTCTTAAAAGGTG
TTTGCAGAGTCGCATGTTCTCTTCCCATGATTCTATAATTATGAGTAGGC
ACATGTGCAGCTGACTTTCAATAATTCTTAAAAAGCATTTTCCTGTAATT
AAATTTGGCTGACATTTGTTGCTTGTTTACCGATTGATTTTCAGAATATG
TAATTAAGCCTGAGAAAATGCCAAGACTCAGTTCTCATCCATTGTCAGAA
AATGGACAGAAACCGGGACCTCTGGAAACCACCACCCTTTTCACCTCACA
AAAGCAGGGGACACTTAATAGTTCTGAAGTAGTTAATAAGGATAACAAGA
TAAATGGTTTAACAGGACCGCATCAGGTGCCTACTTCTGAGGCGGCAAAG
CCTCCACCTGTGATCGCTGAGCATATTGCTGAAGCATCAAGAAAGCCTCC
TCATCCTGATATGAAGTACTTAAGCAAAGTACTTACAGTTCCTCAAATGG
ATGAGTGGTCTGATGTTGATGACCAGGCATGGCTGTTTAATAACAAAGAT
TCTCTATTGAACAAGTCTGAAGTAGATCCTGTTGGGGTGAACCAAGGACA
GCAGGTATGGGCTGAAACTTTAAGGATAGAGTCAGCTGATGTTTTTGCTC
TGCCATACGTAATACCTTACTGAGTGGCACTCAGACTGGCACATCTTATG
TTGGGTTCTTCATTACCATTCCATCTTGAATCTATTTAAGGGCTGCCTTC
GATATTGATTATCCCTGGTTTCCATCGGATTCTTCCTCACTCAATTGCAC
TGATGGGGTGTTTAACTGATTTCCCGTGTCCTAATATTCTTTTGCTGAAC
AATGAGGTGCAATGTGCTTGCACACACACAAACGCAGGTACAAACCTGGA
CAATACCTGCTTTGCAGAGCAATGATATCTTTCTGCAGAGCAGACGGATA
GGACTCTGCATCATTAAAGTTCATATCCATTGCCGGGTAGAGGTGCAATT
TTTGTGTTGGTGAAACTAAAGGTGCAGACAAACCGCTGAGTACTGTTGAG
CTGGAGTACGCAACTAACTCAGAAAGTTGACTAGGTTCGTGCTGAAATTG
AGTGTAGTTAGAAAGAGAGATGTATCGGCTTCTTCTGCAGTTTTATGTTT
ATTTACGTTAAGGAGAAAATACTCTTTCTGAATTCTGATCGAGTGTAAGA
GAAACTAGTTGTTGCCAAAGTTTTGATTTGTAACATAGATAAGTTCGAGA
TAAAGGGAAAGGGAAAAGGTAAAGAGCAGTATGCTCAATTCATTTGACCG
GAACATCTGGAGTAGCTTCTGTCTATAACATGTTCTGTATTCTGGGTTTT
TGTAAAATTACTAGCTTGATAAGTTCCCCTAGAGTGTGTATATAACTGTA
ATGAAAGTTATTAGGCTTTTACGAAATCTATACTTCACTTTCTCTGGCA