| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017382855.1, is a part of gene, LOC108211297. |
| The genetic_marker, MK003820 K1264, is located in gene, LOC108211297. |
| The mRNA, XM_017382856.1, is a part of gene, LOC108211297. |
| The mRNA, XM_017382857.1, is a part of gene, LOC108211297. |
| 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_017382855.1 | XM_017382855.1 | mRNA | DCARv2_Chr3:301821..308839 |
| XM_017382856.1 | XM_017382856.1 | mRNA | DCARv2_Chr3:301821..308839 |
| XM_017382857.1 | XM_017382857.1 | mRNA | DCARv2_Chr3:301821..308839 |
AGGGAAGAGTAAGTAAAGATGGATGAGCTTCTGAATGCCTACTCAACTGC
TGCTTTAGATGAAGAAGACAAAGATGATGACGGTAAAACCACAGCAATTG
CTCCCCCTCCACATCCACCTCCGTCAAAGAGACCCAAGCCCGATTACTCG
TTTCCTACTTATAAAAAACCCAACCAAACGAAACATGTCCCATGTATTGC
GCCCGTGTCTCATAATTATAATAATATATCTAAGCAAACCAAAAGTATTC
CATGTATTACACACGTGCCTCAAAATTATAATTACAATAACATATATAAT
CATAATTATTATAATAATCACCGACCTGAAGCTCCTCCACCTATGTTACC
TGGTAGATATGTTTCCAAACGAGAGCGAGCTGCTGCTGCTGCCACCACCC
CTCCCGATCCTCTTACTACTACTCTGATAACCCCTTCTTCATCCTCAGGT
TTTTTTCCTTTTTTCTGTCAATATATTTCTACATATGTATTTCACTTTAT
ATGATACACTTTTATAAATAACTGACTACAGTTACCCACATGTTTAATTA
TTCAGTTAGTACAATTAATTGGTGTTTCCTAGTTCTCTGCCCTCTTATGT
TTGAATTTAGTGGTCTTATAAAATAGTAGTAATTATAATCTAATTGCACG
GAGGAATTCGAGCATGTTGATTATTGGAGAAATCAACCTTAACACCTTTA
GATGTAGTCACTCCCTTGGTTTGGTTTTATAATCAACCTTTAGATGTATT
TTGTCTGGAAAATGTAAAATTTTGTTTTGCTTCTTCCATATATGTACTTT
ATTTTCTTGCAGCAGTTTGTAGCTCTTTTTTCAGATTGGTTAGTACTCTA
GTCTCTATTTGGTTTTATATACAGTTTTATAAATGAGCGATCATAGTTTC
ATCTTTGTCTCTGTGAGTTACTTGTTTTTCCAAAGTGTTTCACTCTGCTG
TTTTATCTGTAATACTAGTTCTCATTCACTGATGTTTGTTTTTATATAAT
AGATGTATCAATTTTGTGTTGTAAACACGATTGAGTAGCGACTTTTGATG
TTTGACCTCATCTGAGTAGGATGTGTAGACAACTGGCAAAAAATTAATAA
TCATTTCAGAGGGTACATCTCTAATCTCTTTAACTGAACTAGACCCGATG
AGTTATGACAGTCAATACTTATTAATGAACAAAGATTAACCATAACTTGT
TGCAATTTGTTTATGGTTTTTCATGGCTTTGTGGGTTTTTTTTAATATAT
ATTTTGCCCTAAATGATAGGGTTGTTGTAAGCCTGCAAATTAAATTCCAG
TTGCTATCACTATTTAAAAGTAGGTTAGCAAATCTATGTTGATTAATAAA
GCCACTAAAACATTTTAGTATTTTACTATAAGTCTGTATTCAGGCATGCC
TTTAGTCCACTTAACGCCTATCTTCCCTTCATTAGTGACAAAAAAAGGTG
ATAATATATGAAGAATATATTTAAAGGAAAATTAGTTTCAACCTTCTTAT
TCAGATACATCTTCTATTATTTTTGTTATTATGGGTCTATTGATTTCCCT
AATATGCATGTGCTTTTACTGCATTTGAATAAAGATGGTATATTGAATAA
AAATTGCTGAATACCTATCATAAAAGGGATAATTAATTCTAACGTCCCTG
AACTATTGGTTGTTTATTATCTAGGTCCCTATCCTATTTTTTACATTAAT
ACGATCCTTAAACTTTCATACTTTTCTGATTCGGATCCTTTTGTTAAAAG
TCAACTAACATCTGTTAGTCAATGCTTACGTGGCAAATACAAAAAATTAA
AATTAAAACAATAATAGCCGACTCATCACCATCACCATCCTCTCTTCTTG
ATCTTGGACCTAGAGAAACGGGGGAGTGTACATATTTTAACAGGTGATGG
AGTATATACACACACATACTTACATTCTCGCACAGAGATACACACAACAT
TTGTGTGTATGTATAATGCAAATAAGTGTATTAATAGGTCTGATTGATGG
GTTTTCTGTTTAGTTTCTCCCTTAATTCTTCTGCTGCATATCCTAGGGAG
GGAGAGATCGGGAGAGAGAGGGAGAGAGAGATCAAGAAGAGAGGATGGTG
ATAGAAGAGAGTATTGCTGTGATGAATTAGCTGTTACTGTTTTAATTTTA
ATTTTTTGTATTTGCCACGTAAGCATTGACTAACAGATGTTAGTTGACTT
TTAACGGAATGATCTGAATCAGAAAAATTTAAAAGTTTAAGGATCGCATT
ATTACAAATAATAGGATAGGGACCTAGATAATAAACAGCCTATAATTCAG
GGACGTTAGAATTAATTATCCCATCATAAAACAATGTGCAACAACCTAGA
AAATATAAAAGATATAATTCTAATAGCCATATAATATTATATATTCACTT
TACCACTGTAGTCTTGTAAATTATAGCGATACTGAAATACCTGATATACT
CCCACATCGAAGCAGGTTCTGCGGAAATTTAGTATCTAGTATATACTATA
TACTATATAGACATAACTAAAAATAAAAGTGTTATTAATGAATCTAGTGA
AATAATTACAAATGACAAAATTTGTATTTAGGAGATGGTTGAAAGACTTG
TATTCATGCAACTTTTAGAACTCATGATATAAGGCAAGATACTGAATCAG
CCAGCAACAAATTTAATGATAAATTTTATACTACTACAAAGATTATTAGA
AGCAAACTGTGGTCTCTCAACATGGCTCCCTAATGGTTTGTCTCTTAAAG
TTTGTGAAAGATGAATGCTTTTCGGATGATAGTTTAAGATGTATCTCCGT
GGCTGATATGCGCTGCTTAGATTAATTGCTGAACTTCACTTCATATTCTT
TCAGCTATTGGAAGTATTTCGGTCATGGATATAAGAAATGATATATTATT
GTCTTTGAGGCAACAAAGAAAAGGACATTCGCTGAACGGGAAACCACCTG
AAAATTTGTCCTTATCACTCACTGGTCATGACAAAGCTGTTAATGCTCTG
CAATGGTCATCAACTCATTGTAAGTTAGTGAATTTGTGATATATTACGCT
TACATTTTCAGTATCCACCCTTTCTTTGCTGTTAATAATTTAATTTACAT
AATATTGTGGTCCTGCGGCAGTGCTTATGACTTGCTTTAGTTTGCTGCAA
TCACATAATTGAGTCTAGTTTATTTACTGAATAAATATTGCACTTCACGG
AGTTGGAGAGTTCAACTAGTGCTAATTAAACCCCTGGATTTTTGCTCAGA
GTGTGACCTTGGGTTGAGTAGTATACCTGACAATAATCTTTATTTTGAAA
TGCTGCTGCATTGATGCTAAGTCGGAGGAATGAATATTAAATCATCTCAT
ACTTGCAGTTTGATTTTCTCGACTATATCATCCAGATTTATGTCTAATTT
AATAGGCTTTGTAAGAAATCAGTTTTAAGTGAGTCCTTTAGTTATCACTT
CTTGGATTTATTCAATTCAAACCTTGCTGATTACTCTTTTTACTTCTAAG
ATGCAAGATTAATATTGCAGAGGGATGCAAGATTAATATAATTAAGTGTC
AGGTTGAACCTTCACATTTTCATAGATTGTGTGTACTTTTTTGCATGATA
ATTGAAACCACTGCCTGATGATTCTTATTATTAAGTTGGCATCATTTCAA
GTGTTTACGACCTCTTTTGGATTCCTTTATCGATCTGTCATTCTTAAAAT
CATTTTTAAGTAAAGTTATAAATCTAATGTTTTTGGTGATTGCCATCAGC
TCATCTTCTTGCATCTGCTGGAATGGATCATACCATCTGTGTATGGAATC
CATGGAGTAAAAACGAGAGGAAAGCAAGGGTGCTAAGTCATCACACAGCT
GCAGTGAAAGATATTAAGTGGTCGGAACTGGGACTCTCCCTACTCTCATG
TGGATATGATTGCTCGTCAAGGTTATTTGACGTCGAGAAGGGGTTAGAGA
TCCATATGTTTAAGGAGGATCAGGTAGTTGGAGTAGTAAAATTCCACCCC
AACAATTCCAACCTCTTTCTTTCTGGGGGCTCAAAAGGTGTTCTTAAATT
ATGGGATATTCGAACTCAAAAGGCGGCCCATCAGTATGTTCGAGGTCTTG
GTCCAATCCTTGATGTAGAATTTATCAATTGTGCAAGTCAATTTGTGTCT
TCAAGTGATGTATCTAAAGGCAATGTCACCGAAAATTCTATTTTGGTCTG
GGATGTGTCACGACAGGTCCCCCTATCTAATCAGGTAATGCACATTGGCT
TTTTAGTTCACTTGAACACTGACAGTACCATGACTTTGACACCATATATA
TAACGTAGATATATTAATGTGTAATATGCTCGGAATAAACATCTCTCTGT
TACCTTTGTTGCCGAGCATTTACCAGAGATGTGATGTCATAAATGAGCAG
ATTTGCTTTTTACTTTTTGTAGTCTTCTGAACTCCCTTCTTGTTGGTTGG
TAGATATCACATTCTTAAAATTTATAATAAGCTCAATATGTTATTCCAAT
ATCAAGGAGTATATCAGAAACTATGCACATAATATTGACCTTTAACCCAA
CTGAGAAAGTGGTAAGTCGGATTGTTACACCAACTTTCCTCAAATTTGAA
GGTGTAAAGCGTTGATAGATGCACCACAAAAGCAATCATATATTTTTTAA
TAAGAATTTCCTGGTTTACCCATGTATACTCTTGACAATTTCTTTAGGAC
TTTGCATTCTAAAATTCGTACCATTGGTGATGGTTTTAGTTTCTTAAGCT
TATAGTTTATGTTGTGTTACTGTCCACAAGTCATTATGGTTTAACTAAGA
CAGTCATAATGTCATATACATCAAAAATGCTTATCAGTGTCTTTCTCCAA
CAGGTCTATGCTGAAGCTTATACCTGTCCCTCAATCAAATGCCACACATC
TGAACAATATTTTGTTGCACAGTCCAATGGAAATTACATTGCAATCTTCT
CAGCCAAGGCTCCATTCAAACTTGACAGGTATAGAAGATACGAAAGTCAT
GGGGTCTCTGGATTTCCAGTAAGGTGTGATTTTAGCTTGGATGGCGAGCA
ACTTGCATCTGGATCCTCTGATGGCTGCATTTACTTTTACAATTCGAGAT
CCACTGAGCTGATAAAAAAGGTCAAGTTGTATGAGCAGGCATGCATAGAT
GTTGCCTTTCACCCAGTCATGCCAAATGTGATTGCATCGTGTAGTTGGAA
TGGAGAAATTTCTGTGTTGGAGTGATATAAACTGGAATCTTGAGGTAAAA
AAATCTTTTAGGTCCTCCCATGATGCTCCTGAAGGGCAGAGTGTAGGGGC
AGAGGCAGAGGCTCTTCTGATATGAAGCAGAGAACTCTAGATGCGTCCAT
GGGTCATGGGTGTAAGTTCAGAAAGGTAAATATCATTCTCTCTGAAAATT
TTCCTTTATAAAATGGTTCAGTAACCTTCTCACGTTGCTCATAATATTAA
ATCAGTCTCCCGTTAACTCCAAAATACTCGAGTGTTTCACATCGGCACTG
TAACATTTTCCAATCTTTCCTTTAACAAGAAAATCTGCAGGCTTTTCCCC
TTATCTATCTTATGAAAACCATTTTGAAAACAATTATTTGACAGTAAAAA
TGAGAAACTGTAATATGATAATGTATGTGAGTCACATATGAACGTGACAC
TATGATTTCAAATTATTGTAAGATATGACAACTCAGTTTTTATTGTTTGT
CCGGCTTTAATTAAAGGTCACGTGCAAGTTGCTTAAAACATGAACAAAAA
TCATACTTTTATTCAAATACAACACAAGTTAATAGAAATGCAAAAACAAC
ATTGACAAAGGCATTAAAGTTGCTTAACAAACATAAATTAGCATCTGAAA
ATTGAGGAAGGTCGATTGCTGGGGAGTGCTGGTCCCACTCTTCATCATAT
TTATATCGGTGTTCTCCATGTTCTCATTCACAAGCATTTTCCTCCATCTA
ATTCTTTGTTCCTTTGCACTCGCCCGTTGGAGATGCTTTTCATGTTCAGC
ATTCTGATAATCCTCATCTTCTTTTCTTTTAGCATCGTATTCCAGAGCAC
CTTCCTTTAACATGGCTTGCCGCTGTTCTTCAGTGGTATCTCTTTCTTTT
AAGGTAAGCCTGTTTATATTCCTCTTTTTCTCATAATAATAGTCTTGTAG
CTGGATGTTTACTCCAAAATGAATACATTGGTATTCATACTTGGTTGACA
CTTGATCTTATTCCTTTCCAGAGTTTTGGTTCTCCAACAGGCGCATCTTC
CCTTTGAACTCAACTCCCACTTCATGCTCTCTATTTGCAGCCAGTTCCGA
AGCTTCACTTGCTACTTGATATGAGTTGCAGATCCAGTGATTACTAGATA
ATACCCTGGTTACTTATGTTGACTCTTTTAAGTAAGATATTTTTTCCCAG
CAGATTCTGTTCAATTTTTTAAAGCTAAACTCTATTGTTAACTTTAGACT
TCTCTTGCAGACAACCATATGCTTAAAATTTGCAGAATGCTGAACTTGGA
TGCCTAATTTTTAAATGTCAGCTACTAATATTTAATAATGCCATTCACTT
ACAAGAAATGTTTTCTACCAAATACTTTGACTACAAACTAACGAGTTGCT
TGTTTGTAGGTACCAAGAAACTATGATGCCGTGAGAAGGTAGGTAATGTC
AGTGAGAACAACTCTATTTCTCTTCTGCAGAAGATAGCCAGCCCTACGAT
TCATTGATTAGAGAATGTTTGTGAAACTTGTGTGTTCGAAGAATAACAAA
CAAAATTCTTTCTTCAGAGGAACGCACGAATGTTTTTAATGTGCAGTGTC
TTTTATTGTAATTATAATATAATGTGATGGTGTTTTGTGTGTAAAACAAT
GCATTGCTTCTTTTTATGGCTATGTAATGCAATTACAATTCCTATCCTTG
TATATTCTTGACTGCAAGGTGAGGTGAATTTTATTTTTCATAGAGCAATT
TGGATCAGGATACTTAGAGAGGCAAACTTAATTTCGATAAACAAATTACT
GTGGTTTATTTAGTTTAA