| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017359666.1, is a part of gene, LOC108193142. |
| The genetic_marker, MK009731 7_29080627, is located in gene, LOC108193142. |
| 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_017359666.1 | XM_017359666.1 | mRNA | DCARv2_Chr7:29073887..29081145 |
TTAATCACACAACAAACGCCTTTCGAATACTCCGGTACACTAGGGCAAGC
CCGGGGTTCTCCTCAATGACCACCGACTCCACTCCTCCTCCACCACTCAC
CTCCGACGACCACCCATCAACCACCACAAGCAATCCACGGCCGCCGGATT
ACGCAACCTCAATCTCTAATCTCCGTAGCTTCGCCACCGCTCTCTCAACA
TTCCAACGCCGCTACGATGAGCTACAACAGCACCTCGATTTTATCCAAAC
AACTATCCATTCCCAAATACCCGACCCGTCTATCATCCCTCCCTTTATTC
CACCTACTCCACCTTCTCCTATTGCAATAAACCTGGATAAAAACCCTAAA
TTGTTAAGTAATTCTGACGTGGAACCTAAGATTAAAATTGAAGCTGATAT
CCGGGTGGCAACTACAATTCCCGATAAAAAGCAAGCAGTAGTTGAAGTTT
CCGAATCGAAGCCCGAGATTAAATTGCCTGATTCTGGTTTAGAACATAAG
AGTGATGATAAAGCTACTGATTGCGGAGAGAAAAGTGATGTCGGTGTTAT
AATGGATGATACTCAATCGGAGCTTTTGAGATTATGTTCGAAAACAATGT
GTGGCAGGAGTCTTCGGAGGTACATTGTGACACACATTTCGGACGGTGAT
AGACTTAGGGAGGAGGTTCCGAAAGCATTGAAATGTGCAGCTAATCCGGC
CAAGTTGGTGTTGGAATGTGTTGGAAAGTTTTATCTGCAAGGTAGTAGGG
CATTTAATAAGAGTTCTCTGATGTTAGCAGGTAGAGATGCTTCAATTATT
ACATTGGAGTGTTTTTTGCTGATGGAAAGGGATGGAGTAGTGATTGACAA
TGGGGTGAAGGAAGAAGCACATAATGCGGCTGTAGCGTGGAGGAAAAGGC
TACGGGGGGAGGGGGGATTGTATAAGGCGTGCGAGGCTGATGCTAGGGGT
TTGCTTTTTTTGATTGGTGGTTATGGGATTCCAAAATCATTTGAAGTTGA
AGATATTAAAGATTTGACTAGGGCATGTAAATTACAGGATATTTCTGGGG
CTCTTCGTCGTTCCCGCTATCTGCTTGCGAGGATTCCAGGTATCCTTTTT
TTGATAACCTTATTTCAATTAGTTTTGCTTTTACATATATTATGGATATT
CAAAGTAATGGACTTACTTTTATTTTACACAATGTACATGTTAAAATATA
TGAATCAGTAATGATTAATGATTGCTTTAAAGTTGTCAAAATTTGGGGCA
GCAGCTCATTAGCTTAGTCTCATTCTCATATCATTTACTTGTCAAATTAA
TTTATTGTGGCAATTTTCCATTGAGAGATTTAAGGGTCTTGTAAGGAGAT
ATGAGAGATACATAGTCATAGATTAGAGGGGATCAGATGGTTTAGAGGGT
TGATTATCAGTTTTGGGAAGTAGGTTACTGTTGATTCTTAAAAGGACCAC
TCAGTGACTCGAAATATTGTTATGTTAAATTTGTGATGTTGCAACCCAAG
AAGGGCAGACATGACATGTTAATACAATTTTCTCATTGCTCCATCCTTTT
CTTTCTAAATCATATCTGCTGTTAGCCAACAAAAATTCCCCACTCAACTC
CCATGAAATCTTCTCATACCTTTGTCATCTCCGACTTTAATATATTCACA
TAGTAAATCAACACAATACTCCACTTACAACAATGAAGCGCATCAAAGCC
AATTAGCATGCAACAAATTGTTTTTACATTTACAAACCTCTTGTTTCCAT
CAAACTAGAGTTCCTACTTGCCTGTAATTATCCATAGATGTTGCTGTTAT
AATTCGGCCAATGACCTACAATCTGTTGTATTTTACGTGAAATTAACACA
GAATTATATTTATTAATAATTATGATTTATAAACAACAGATGCAACTTCT
CTTTGTAAGACTTCTTGGGGATACAAGATGTTTTCATCTACTTGCGAAGG
ATTAATGAAATTTTTAATTTTCAAAACTTCTAAACAAATGGGAATAACGC
CCATCATTACAAAATAAGCAATGATAGAGAATTAACTTGAATCTTGAAAC
ATGAGTATTTGATGAAATAGTACATGGTTACAAGTAAATGAAGCATCAAT
TGGACACCATCATCTCTATTTGTTAGTGCTTATTACCCGTATCATTGAGG
GTAGGTTGAGCATATTGCTCTTAATGGACTCAAAGGGGCTATTAGCTATG
GGAGCACTAAAAGTTCACCTATATGAATTTTAAAGGTGTTGGGGTTGTAG
CCTTACATGCGTTAGGGTCTTAACTTTAGATATTTGATGACATTGTATTT
GGACACAAGGCCAATCCACGTGAGCATTTAGAAGGTGATCCCTGGATTTC
TTTGGCTCAATTGGGTGTATATTTTTCCAAAAAACTATATCTAAAATTGG
TTTGATGATGCATCAACCATTATTTTTGCAAGACGTCTTTAGGACAAACG
ATATATTGAGTACAAGACACCACATCTTGTTCATGTTTTTGGTGTGCAAC
CTTTAATATGAACACACAATCATGAGAGCCAGTTTTCTAAAAGAGACAAG
TCAGTGACAAAACTTGATTTACGTAATTTGCAGATGAGTAATCATCATCA
CAAATAAGGCTATATAGATTAAAAAAGATCTATGCTTTAGAATGTTGGTG
CAAACAAATATAATGCTCATCTTTATTGTGTCATTACAGCATTTTGATTG
CTCTGTTGCACAGATGGTTTAACAAGAGATTTGGTTTTCAGATCTCTACA
GGGACGAGGATTAAGCCCAGTATCATAGAACAACAAATGATAGGAAATAA
GTTTATCTGTTGAATGTTGTTACAGTAGAGTACAAGTTAAATGAATAAAG
TTACATTGCTGGAAGCAGTTGAAGCATATATTTGGTACGATCATCTCTAT
TTGTTAGTGCTTGTTACTCATAGTGTTGAGGGTAGGTTGAGTATATTGTT
CTTAATGGCACTAAAAGTTCATTAAATATGAATTTCTAAGTTGGTGATGC
CGCCTTATATGAGATAAGGGCTTAAATCTAGATATATCATGAAAAGAGGA
TATGGACACAAAGCTAATCCACGTGTCTGACATTTATAATGTACTATAAC
TTTATTGGTTTATTTGTGTGTAGTTTTCGGATATGTTATATTTAATAATG
GTTCAAGGATATGTCAACCATTATTCCTTGTTTAATCTTGAGATCTGTAC
ATGGGTTTTGGTTCAGATCATGAGACACTAATACTGATGCACAAAGACCT
TGCGTCCTTGCCTTCAAATTGAGTTACGTATATCTTAACGAATAATACTC
GGTGGCTTTTCATTTGAAAATGGTGGTAATATGTTGGAATATTGCCAATT
AAATTATATGAACACGCATCTATTTGATTATGAATAGTATGGTTGTAGAA
ATCGGAAATTGGAACTAATCAGTTGACCTACCGATTCAGGATTTATCAGG
GATTTATTGGAGATTTTTTCGATAAATCGGGGATTTTTAGTCAAATCTGA
GTGTAATCGGTAAATTGGTAAAATATTATTAAGGATCAATCGAGGATTTG
TCAGGGAATTTTCAATAAATAGGGGACTTTTAGAAAACTGATGAATATAT
ATAACTTATAGTCATAAGACATCCAGGGAAGAAGTCCCCCAAGACGTGTT
TAGGGCACAAGCCTTCTTGGCGTTACGAGATATCTTGATTTTAAGATATT
TTTCCTGTTTTGCTGGAGGCATCATGTTTTAATGTTTTTGGGGTGCAAAC
TTTTCATGAACAGACAGCCTAAGAGTTAAAAGAGTCAAATTAAGTAGAAA
ACTTGATGTATGTATATATACCGAGAAGGCTATATAGAGCAAGGAATATA
CATGGTCAGAATGTTGGTACAAAGTACAAACTAGTTTTATGCTCGGCTTC
ATTAATGTGGGTCAGATCAACTGTGAACTGTAGTTTTATTCTTTTAAAAT
TCAGACATGTACAAATTTTGTAAATATTTCAATAAATATATGTGAACCGT
TCTATTATGATTTATGAACTGTAGCAACTTTTGGTCATTACATCTCGGGG
GCAAAAGACGCCTTTAAGTAGACTTTAAAAAAACCTTTTCTTGAAGGCAT
TATATTAATATTTTGCTGAACTTGATACATCTATTCAGTAGATATATAAT
CATTATCACAAAAAAGGCTATATATATAAATTAAGGAATATTTATGGTCA
AAATGTTGTTTTATACAAACCTGATACTTGGCTTAATTGTACCAGGATGG
AGGGGGCTTAGGAGTGTGGGTGCGGTCAAGTAAACTTTAAAATTAGCTAA
TCTGATTGTGTAAGAATTTAGACATATATAGTATATACAAACCAAGAGAA
CTATTAAATTGTTAAATAGATTTAATTTCTGGTTATAAGACGTCTGTGGA
GCACCAAACTTCTTTGGGACATAAAGATGTCTTGGGATCAAAAGACATCT
CAGTTGAATAAAAAAAAAAACTGGTCACGACTTAGGCCTAGGATAAAGTA
TTATTTCCACCAAATACATTAAATAATAACGATATTTCGTTAAAAAATTT
AAAAAGCATCTAAATAAAATAATGTTTACTGAATTCCATAATATATTTTT
TTATAATAGAATACTTGTTTATATTGAAAAATGGGGAAACTATTCTCACT
TGGTTTTTCCCCACCAGATTCAGAATAATCCTTATCCATAACTTATCGTA
GAGCACATACAAGTCCTATGTCCAGGTATATTTCACTTGTGTTGTAGCAA
GTAGTTGTTTAGAGTGCTTATTGCTTGAAATGCTTTTTTGATGTCACAAT
TGGGAAAACATTCCGGTTTAACACTGTTTTTATCATTTTTATTGTTGGTT
ACTAACCAATTTGCATAATTTTTTTGGGAATAGTTGAAGAAATAGTTTAA
GAGATGTGTACAGAGCACTTGAACCTTTAAAGTTTGCTCACAGGATATAA
GTTTATTATTGTAGCACAAATGATTTCAGTTTACTCAAATATTCTTTTAA
CTTTATATCGTGCTATGAATTATATTTATATTTAAAAGAATAAAATTGTA
ATTTTTACATCAAGAAAGGAATGATCTATTCATCTCTCAATGAATGAATA
TATGTTTTTGGTCTCTGGGGTATTACATTATGGAGGTTTGACTATAGTCC
ATTGATTCTAACTGCGTGTTTTGAGAGATGAAGTAGAAGGAAAATAGAGA
ATACAAATAACTTATTTGAATTGAGTGACTAACAATCTATTATTCTACAC
AATTATAGTCTATTCTCATCTTTACTCACAATACTGCTCGAGATGCACCA
AACTGTCTCATAGTCGGACTTCACCACGTTTTCTTTAGAAGGTGCTCCAA
TTTAGAATTTTTGTCGAAACATAACCTATAAAGGCTCGCTTAAGTAATAA
TAAACCCACCCTTGGGATCACTTTGAAGTATTTTCTGAAGTAAATGCAGC
TAAATTTTGTTCAAATACTGGCATTCTAGTTCTTTCGATGCCTTCAGATT
TGGAATGTAGGAAGTTAGGATGTGCCGTGCTATCACTTGAAAGGTCTATA
TTTTGTATTTCGTAGGGCCAGTTTGTCCCAACACGTTATATAGGTCCTGA
GATCGAGACCAATTTCAATTAACAAGTACCATAAGAATTAGAGGTCAATT
TCAAATGTTTCCATATGGAAACCTGCTCTTTTTGGCTGGGTAGTCTTGTC
CCCCTCATCATCTTGCAGGATTATATAAAATTCACTGGAAAGTCTTCTAT
CATCTTCACTTCCAAATATTAAATCGACCCAATTTAATGTCTATCGTGTG
TATTGAAATTATTGGCATTTATGTTTCAGGTAAATTAAAAAAAGACAGAA
ATTGCATTTTAGCTGTGCAGTGCTTGTAGCATATTTGTATTTTTTGTTCT
TTCAGCTCCTTCCTGGTCTTCTGTTGTACTGCTAAATGTCATGTCTTGAC
TTCCTTTTCCACAGAATTAATCGAGCAGATGCTGAAGTATAAAAGGGAAG
TTGAAGCTCTTAATATCGTTTATACTTTCGATGTTAAGGACAAATATCCT
CCTCAGACAATTTTAAAATCATTTCTGAGCAAGTCTGATGAAATTCTGAA
GCGAAAAAGAACAGAAGCTGCGGATTTATCTACTTTGGTGGTATGATATC
ATCTAGCACTTTGTATGTTGAATCTTCTTGGATCTTTTGTTTCTTTCATT
GGTTTATTAATTCTGTGAATTTTTGCAGATTAAAGACAAAAAGCATTTAG
ATGATCTTAAATCGTTACTAAGATGCTGGAAAAATCACAAGATTGATCCC
TCAAAGACATTTCCAGACCTGGATATCAATGAAAAGATATCAAGCTTGGA
AAGAGAAATTACCGTACTTGATAAGAAAGTAAGAGAGGATGTTGCTAATA
AAAAAAAGGAGAAAGAGGTTGAGTCTTCCAAAAGGTCAAAAACCCAGGAT
GCAAAACGTCCGCGCTTTCCTGGTCATGACCTACCACTGCAAGGAGCAGT
TGGACAGTCTGATGATAACAACTCCGTTGACAAATTGACACAGATGAACT
ATAATGGAGGATTACCTGAACACTATGGTTATAGTGCTTCGCCGTCTCAA
CGGCATGAATCTGGTGTAAGGGATATTCATGCAACAAGAATGTTGCATGA
ATATTCTGATGTTACAATGGTTCAACCGCGAACAGATCGAGTAGGCTTGT
TGCATGAATATGCTGCTTCCACGAGGTTTGGTAGTGGGGGCGGGGTGGTT
GCAGCTGATGAGACTGAAGGGGGTTATATTTCCAGGGTTCCATATGCTAC
TTCTCATCTGGGTATGCATAGCAACGTAAATCCATATACTGGGCAGCTGT
TTGGAAGGCATATGGATGCACTGTCCAATGACAGGTATGCCAGTCAAACT
TATGCCGGAAAACCTTTGTATAGTGGGTATAATGACCTTCACAGGCCATC
ACCAGCGTTGGAAGGATTTGCAGGTCTACCAAGTTACCCAAAAGCTGGCA
GTTCCATTCGTAGCTCTGGCTCTGACCTCTACCACTTTGCTGATTCTGTG
CTGGAAAGTGAGCTGAAACAGAAGAGTGGTGCTCCTTCAGGTGCACAATT
GCGCCGTGGCTAGCCTTCTGATTATAATTATTCATACTTGTAATAGTCAT
GTACTGATAACAGGAAGTTTTGATTTGTAGCTTTGGGTGGAGGACAGTAG
GGAACTTCTGATGTGTAAACCAATGTCAAAGAAATAGATTTTTTCTTTTT
TATAATAA