| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017376785.1, is a part of gene, LOC108206473. |
| The genetic_marker, MK009491 2_29863989, is located in gene, LOC108206473. |
| 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_017376785.1 | XM_017376785.1 | mRNA | DCARv2_Chr2:29862691..29869386 |
ATGAAGGACCAAGAACAAGCTAGGTTACTGTTTGGTCTCTCACTTTTGGA
CAGACCCAAATGGCAACAATTTCTTATTTGCTCTTCTGGGTTTTTCTTTG
GTTATCTTGTTAATGGGGTGTTAGAAAATGGAAAGTTTAAAGCATATTTT
TTAATATGTTCTTGATGTAATTTCCGGGACATTTTCTTAGTGAAATCCAT
TGAGAAATAGAGTTGAATACAGTGGCTTGAAAGAGCTTGAAATGAGAATG
TGATTCATTTAATCTGGACAAATGAATCTGGTCAGTATATCTGACAGATA
CAGATTCATTGAATCTGGACAAATGAATCTGGTCGGTATATCTGACAGAT
ACAGATTCATTGAACCTGGACAAATGAATCTGGTCCGAATGTCTGACAGA
TACAGATTCATTGAACCTGGACAAATGAATCTGGTCAGAATGTTTGACAG
ATACAGATTCATTGAACCTGGACAAATGAATCTGGTCAGAATGTCTGACA
GATACAGATTCATTGAACCTGGACAGATGAATCTGGACGGTGTGTTGGTG
CCTTGGCCTCACTATAAATAGTGAGCCTCGACACTTGAGTTGTAGCACGG
GAAAAACACAAACACCATTCTCATTCTTCTCTCTTACACTCTCACCATCT
ACTCCGATATATACACATATACATACTGTTCTCGGGCGAACTGAGGTGTT
GATCGCTGTTGATCGTACTCGTGTCTGTGAGCGGTTCGGTCTGTGCTGTT
TTATCCTGGGAGCGATATTGCGACTACCCATCACAGCGTAGTGGGGCAAT
AATCACTTCAAGAACAGTCTAGTCTTCATCGAAGGGCTAGGCGACTCAGC
TGTTCTGTATACTAATTCTAGCGACGGTGTAAGGTGCGCCTTTCTCTTCT
TTTCTTGTAATTTATCAGTCACTGATTATTGTATATACGATCTTCGTGCA
TGCTATATTGTTGTGGTTTCGTTGGCCTACACTTGTTTATATAATATAAC
TGCTCTATACATTGTTGCTGTGATTTTCACTGTGACTCCCAACAATCTTG
AAGTGATTATCTGTTATATTGTGTAGTAAGCAAGATGGTTAATGAGATTG
CGGATTCTGTTGTTGGTGGTGGTGCTGGTTCTGGGTCTGGTGTTACTAGT
AACATCGATTGGACTACGTATCGTTTTCCACAGCCCATTGATTTATCAGG
TATTCCTGATAAATTCGGTGGGGGAGTTTCTTTTTCTCGTTGGCAGAAAA
AGATGAAACTGTGGCTTACGGTTAAGGGTCTATGGCCGGTGTTGCAGTAT
GAGAAACCAGTTGTGGTACAGGAAAAGGCTGAAACCCTTAAGGCCTATGC
TATGTGGGAGGAAAAGGATGGGGTGGCTAGGGCTGCTATTCTAGCAGCCT
TAACGAACACTCTGTTCGATGTTTACTCATCTGACTCCTACACTGCTAAG
ACCTTGTGGGAGAAACTTGATCAGACACACAATACTGACTCGCAAGGGTT
GGAAAAGTATTCTGTGGCTAAGTTCCTGGACTTCAAACTGGTGGATACAA
AATCCATGACTGAGCAGGTGCATGAGTTTGAGACGTTGGTGCATGCTTTG
AAGGAGTCCGGAATGGACCTTCCTGCGGAGGCTGAATGGTTACATGGACT
CATGTCTGTGTTACCTGTAGTAAGTCGTCCGCTACCGGCAATTTCTGTTC
ATTGTGATAGCCGTACAACTATCGACAAGATCAGAAGTGTCAAGTATAAT
GCTAAAACAAAGAGACACATCCAAGTTAGACTTAAGTCTATAAGGGGTTT
GGTGTCTGATCGGACTATTGCTATTGAGTTCATTGGAACTCAAGATAACA
TAGCTGATCCACTGACTAAAGGGCTTGAGCATGCTGTTGTCCTTAAGTCA
AGGTTGGGGATGGGACTGATAACCCATCATGATTCATCTACAGCGGGAAC
CCAATACATCTGAGAGGAGATCCCTCAAAGTGTATTCAATGTGGTAAACA
AGCTGTAAGGGTGGATCGGTAGTACCTTTAACTACAATGTAGATACTTAT
GCATCTGAGTCTATCCCCTGCAAACCTAAAAGGTACTGACACTGCAAGTA
TAGCAAGAGTTTTTAGAACTCTGAATGGGGTCAAGTCATTTGACGAGATG
GTTGCAGTACATCTCTGGAGATGCCCAGCTAAGCGAATGTAATTGTGAGG
TCGCAATTAGAGGAAAGGGTTATTCCTTGAAACATTCGACGAACAGGATC
GAGACACGACCATTAATGTCTCAAAGCCGTAGATCGGCACCATAGCCTTT
GACTTGTCGTCGTCTATGGAGTGTGGTTACACCCAACGGATAGAGATTCA
AGGTGAAACAATCCATCTATATCCGGTAGCCATCGAAGTAGGGGACTTAG
GAGGGTTCAAACCCGGAAGGGTACCTACTCTGAAAAACAAGTCATGATGA
GGACTAATATGCATATCTATATGGATTTGTGGGGGATTGTTAGAAAATGG
AAAGTTTAAAGCATATTTTTTAATATGTTCTTGATGTAATTTCCGGGACA
TTTTCTTAGTGAAATCCATTGAGAAATAGAGTTGAATACAGTGGCTTGAA
AGAGCTTGAAATGAGAATGTGATTCATTTAATCTGGACAAATGAATCTGG
TCAGTATATCTGACAGATACAGATTCATTGAATCTGGACAAATGAATCTG
GTCAGTATATCTGACAGATACAGATTCATTGAATCTGGACAAGTGAATCT
GGTCGGTATATCTGACAGATACAGATTCATTGAACCTGGACAAATGAATC
TGGTCAGTATGTCTGACAGATACAGATTCATTGAACCTGGACAAATGAAT
CTGGTCAGAATGTCTGACAGATACAGATTCATTGAACCTGGACAAATGAA
TCTGGTCAGAATGTCTGACAGATACAGATTCATTGAACCTGGACAAATGA
ATCTGGTCAGAATGTCTGACAGATACAGATTCATTGAACCTGGACAGATG
AATCTGGACGGTGTGTTGGTGCCTTGGCCTCACTATAAATAGTGAGCCTC
GACACTTGAGTTGTAGCACGGGAAAAACACAAACACCATTCTCATTCTTC
TCTCTTACACTCTCACCATCTACTCCGATATATACACATATACATACTGT
TCTCGGGCGAACTGAGGTGTTGATCGCTGTTGATCGTACTCGTGTCTGTG
AGCGGTTCGGTCTGTGCTGTTTTATCCTGGGAGCGATATTGCGACTACCC
ATCACAGCGTAGTGGGGCAATAATCACTTCAAGAACAGTCTAGTCTTCAT
CGAAGGGCTAGGCGACTCAGCTGTTCTGTATACTAATTCTAGCGACGGTG
TAAGGTGCGCCTTTCTCTTCTTTTCTTGTAATTTATCAGTCACTGATTAT
TGTATATACGATCTTCGTGCATGCTATATTGTTGTGGTTTCGTTGGCCTA
CACTTGTTTATATAATATAACTGCTCTATACATTGTTGCTGTGATTTTCA
CTGTGACTCCCAACATGGGGTTTGTGAGGTACTCTTTTTAAACCCTACTT
TTTTTTAATTTCAAGATTGTTACATGTTTTTATATTTATTTGTTGATTTT
GTGGGATTCTCTGTTTAGCCAAACAGGGCTTTGTTTTGTGTGATGTTATC
ATGATTGTATCAAGAATTAATTTACGTTGTTTATAGTGGAATTAAAAGTC
TGGCTGGATGGAAATTGAAGAGTTTGTATGCATAAAGATTGGAATTTTTT
ATGTTATGTCTGCTGCTACTATGTCAAGCAATTTTTAAAAATTTCGAAGT
TCTTTTGTTTCTTAGTTGTGCATTGTAATGTGCTCTTAATAGTTGATCTG
TGTGAAAATTGTCTATAGTTGAAAATTGGATTTTTACTTGCTTTCCTTTC
ATCAAACGTTTCTTGCTCATTTCAGGAATATGTATATAATCGTCTTCAGT
TCAGGTTAGTTTTGCGTTTTTTCTAGTAACATAAAAATTGTGGTTCACGT
CTTTATTATTTGTTGGTCAGCTATTTTTTTTATGGCATTTAAGCTACTAG
ATATAACAAAAGGCTGATTAATGTTTGATAGCTGTTTTTGGATAAAATTT
TAGCAAATATTAATTTGGCCGGAAAATTGTGGAATGCTGCAGTTATGGAT
GGTATTTCACATTTGTTCAAGGGTGGGTTTATCTTGCCCTTATTTACTTG
CAAGGCTTTACGAGTAAGCAAATGGTGAATCCATGGAAGACTTATGTAAA
GCTCTCTGCTGTGCTCATGGGTTCTCACGGTCTTACTAAAGGATCACTGG
CTTTTCTCAACTACCCTGCACAACTCATGTTCAAATCCACAAAGGTGAGT
GGCACAACTGATGCTTAAATTCTCTTCTATTGGATATTTGTAAGAATTCA
CATAATTGTCAGTCTCCTTGATAGATTGTTAAATTTACCATTTTACAGAA
GCATTGTTTGTCATCTTGGTCTTTATTTATTCTCTTCAGTAGGTTAGTTA
AAAGACACTATGCTGTAAAGATGGGAGGAAAGATATATAGAAATAATACA
TGTTATCCTTTTCTTATGCCAACTTCTTCAAGCTTTCTAGTGTGTTTTTT
TTGACAAGGCGAGCGGGGTTTTAGATGGGATTAAAATCCTTGTGTATATG
GACACGTGCCAAGTGAGACTTTAACCTCAAACCTCCACTGGAGGGAGAGG
TGTAATTACTAACCTCCAACTGGAGGGAGGCCTGCAATAGCTTGTGAGTT
GAGTACTACCCAGATAGTTTAGTAGTCTGGCAGTCTTAAGTTTAAGTTGT
GACTTTGATATTTCAGGTTCTACCTGTGATGATAATGGGAGCCTTTATAC
CAGGGTTGAGACGGAAATACCCACTTCATGAATACATATCAGCAATACTT
TTGGTAGTAGGACTGATTCTTTTCACTTTAGCCGATGCTCAGTCTTCCCC
AAATTTCAGCATCATTGGTGTTATTATGGTGTCTGGTGCATTAGTTATGG
ATGCTTTTCTTGGAAATCTTCAAGAAGCTATATTTACCATGAATCCTGAA
ACAACACAGGTTAGATGCATGTGTTTTACTTCCTCTTTGCTTGTATAAAT
GTGATAAACCGGATGCATCAAATATTGTGTTTTTTTTTTAAATTCACACA
GATGGAAATGCTCTTTTGCTCAACTGTTGTCGGTTTGCCTTTTCTCATTC
CCCCAATGCTTTTAACCGGAGAACTGTTCAAGGCATGGACTTCCTGTTAT
CAGGTAAGAATTATGTTTCACTCCTTTTTCCGTCTTACGAGTTGCTCTGA
GTGAACTTGAGTTAATACAGATTTTTAAACAACTGCAGCATCCCTATGTG
TATGGCGTGTTGATTTTTGAGGCCATGGCAACCTTTATTGGCCAAGTATC
TGTCCTTTCTCTCATTGCTATCTTCGGTGCTGCTACTACTGCTATGGTAC
ATTCTTCTCACAATTCTTCACTATAACAGTTCGCAAAAATCTGTTAAGTT
CATCACAAAACCCAAACAAAAGAGTAGAGAACTAGTCCAACTCAAATTGT
TTTTTATTAATACTATATTACTATCCGACAAAATGTAACTTCTCCTGCCT
TTTCGCTGTTGAAACTAGTATTTTGAAACGTTCCTTTATTGGATTAAGTT
CTGAAATAGCAGTAGTTTTCTTGATTTCATTGTACTTGGGGGCTGTCAAT
TGAGCCAGGTCAAGGTTTTGGTCATTGAGTTTAAGTTATGGCCTTTTCGT
ATCGAATCAAGCTTGAAATTTGTTCTGCCTAGAAATATATTTGAGTTCGA
CCATGTATAAAAACAAATCAAGTTTAAACCTGTTGTAAACAATCAAGGCC
AAGTCGAGTTCAAGCTAATCTGAATCTGCTCGGTTCAAATTGCACTTACT
TGTACTATTTGCGATATGTTCATCTACTCACTGCTTCTTAGCGAGTAAAC
ATTTATTTTTTCATCTTTTCAGTTACCTGCAAGAAATCAAATCCTAGGTC
TATAACTAGCAGTTGAAGTTTTTCTTTGGAATACTATAATATATATTCAC
GGTCTATAGCATATCCGAAGTGATTCACTTTAATTTTTAAGTTAAAGGAT
GCAGCAGCATCTAAATATGGCATTTTAGCATACAAATAATACGCGTTTTT
GACAAATTATGACATTTCTCTTCTTTTGTTGAACAGATAACAACAGCTAG
AAAGGCAGTAACATTACTGTTATCATATATGATCTTTACAAAGCCCTTGA
CCGAACAACATGGAACTGGATTGATACTGATATCCATGGGGATCATACTT
AAGATGCTTCCTTTGCAGGACAGTACTCCAACCAAGAGGTCTACAAGACC
ATCCATGGCTGCTATGGTTGAAATATCTTCTAATAGTGATAAAAGCATAG
ATGTAGTAGATAATGATGAAGAAGAACAAAGACCTTTAGTCTAACAGTCT
GATCTGAACAACAGTGAATCGTCAGGTGATATTTGTCTATCTTTGATTCG
TTTTTATGATTTTTATGTTAGTCGTAAATATTTAATGATTTGCTTATTAA
TTGAAATCAGCGTGCACATGGTACATGTCACTTTATTATCACAGTAACAA
CGTAATCAGAAGTAGTTTCTTAAACCTGTTGTTTGTAAAAGATGAAGTCT
GATTTGTGCTATTTATAACTCTCAACTTTGATCTGCACAAGGAAT