| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017363706.1, is a part of gene, LOC108196426. |
| The genetic_marker, MK009750 7_29907177, is located in gene, LOC108196426. |
| 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_017363706.1 | XM_017363706.1 | mRNA | DCARv2_Chr7:29905248..29911267 |
GGGCAATACAGTAAATGAGTATAACGTGTCATTTTCTTTATTCTCTCTCG
TTCTCCAAGACCATTCATTCACTGTTATCAGCGCTTTGTGTCTCCTTCTG
CATATGTATGTATTTGTATCTATGTATTAGTACAAGCTTTTTCCCCCATA
ATCACACCTCAAAAACAAAACAAAACACTAAACAAACACACAAATAAACC
CTAATTTTCTTTCTTTTATTCACTCCAAAATGACATTTTTCATCTTCATC
TTTTACTTGCTCTACTGAACTAAAGACTGTGATAAAGCCCCAAAGCTCAA
AGCTTTAGCATCATCGGTAACTCCACCACTGACCCTTTTAATTTTTCATC
TTTTTAACACCATCTTCACTTGTTTTCAATCATCACAAGCTCTGTGTGTG
CGTATGTGTGTAGCTTTAGTTATGAAGTGATTGTTGGTTATCTGTTGACA
ACCCAGATGTTTTTGTTTGTTTGTTTGTATGTACTCTAGTCTTTTTCATT
TTTCTATTTATGTGGGTCTTGTGGTGTTTTTGATTGTGTATTTAATGGAA
GATACTATTTTTTTTTACTAGATTTTGTTTATTACTCAGTTTGGTCGAGG
GAGGATTGTGTCATGTGTTAGATTTTCATTGTTTTGGGTATTGAGGTCCC
AAGGAGAGGTCTTTTTAGTATAGATTTGATGGGTTGATGGTGAAATTAAT
GTTTCGAATTTAAAGCATAGATTTTTAGTACTATCAAGTGAAGGGGTGCT
TTTCTTTTTTGGGAACAACATCTACGATTGATGGAGTAAGATTTTGTCGA
ATTAATAGACGGATTGTTCTGATGTCATTGAACAAATATCTTTTATAATT
TTCTTATTTTTGGAAATTTATGTGACTTATGTGGTGATGGCTATATCTTG
TGTAATTTCAATGTTCTTGTTTATAGCTTCACCTTGCAGAAATTTACTTA
TTGTTCATTTATGCAGGGGTTTCATGGAGCGTGATAAAGCTGTATGCGGA
GTGTTTAAATTGTTATTCACTCTGTTCTGCATTGTGAATGCTGGACCATG
TGCCACAAGTAAGGAGAAGAATTCAGTGAAATGTGATGCATGCGGGCCTT
ACAGTGAAAATTTTAAAGTGCATTATGATGATGACTTTGCCGCTGATGGT
GATAATCAAATTCTCTCTGGTAATTCAGCGGCTCAGCCTAGTCTTGAGAA
TGTATGTTCTAATTCAAATTTGTTCTGCTTTCCTTCAACTTTGCCTGGGT
TTTTGTCCGAAGACAAAATTGCAGACTCAGCTGATCTGAATGATTCTGAA
CTTCAGTTAGATGATATAACGTCAACTCATGGGAAAAGCAACGCAACATG
GGCATCTAACGTTGATAGTTATAAGTTGTTAAATGGGAGGGTTGTTTCTT
GCTCGTTAAACTCACTTGTGGGTGATCATGATAATTTATGTCACCGAAGC
AGTTTATGTGACCAGGATGATATTACTTCTTGTAGAGGAACGTTACTTGA
TCGGAGAGCCGCAGGAAATGAGAACTCTGCCAAAATTAAATCTGATATAT
CTGATGGTGGTTCTCTCCAGGTAGAAATAAGTCCTCCTTTGCTTGACTGG
GGGCAAAATTATTTATATAAACCTTCGTTAGCTTTCGTAACAGTGACAAA
TACACACAGCAATGGTATTCTAAATGTTTATGAACCTTATAGCACCAGCT
CACAGTTTTATCCTTGCAACTTTAGTGAAATGACTCTAGGACCTGGTGAG
GCTGCTTCATTTTGTTTTGTCTTTCTACCTACAAATTTGGGCATTTCCTC
TGCCCAGTTAATTTTGCAGACAAGTTTCGGTGGTTTCTTAATTCAGGCAA
GTGGCTTTGCTAATGAATCACCTTACGGCATAGAACCTTTGCTTGACTTG
GATCGTTCTTCTGGGAGAAGGTTGAAGAAGAATTTGTCTTTCTTCAATCC
CTTTAAAGAAACCCTCTATGTAGAAGAAGTAATTGCTTGGATATCTTTTT
CTTCAGGAAGTACTTCCCATCTGGCTAAGGCTATTTGTAGTATTAATAGT
TTACAAAATCATGCTGGAATTAGTGACCCTAGTGTGCAAAAGTGGGTCGG
CAAGAAGCTTAGTCAAGTAGATATGCCAGAAATAGTGATGAGACCCCATA
GGAAATGGGAGGTTGCTCCCCAGAGTACTGAAATAATTATAGATATAGAC
TTTCAGCATTCCAAGGGGACAATCTTTGGTGCTTTGTGCATGCAGGTTTT
AAGGTCTTCAGTAGAGAAGGCTGATATACTTATGGTTCCTCTTGAAGCTG
AAGATGACATCACATCAACATATGGCGACCATACAAATCCTGTTTCAGTA
TCCCTTGAAGCCCTTCTGCCATGTGATGAAAGTGGAATAGTTCTTGCTGC
CTTGTCTTTGAGATATAATGTTCCCCATCTGCTAAAAGTTGTCAAAATTA
GTGCAGTTGGAGAAGATGCTCAATCTTTGCTGTTCAAATATGTAGAGGGG
CTCATAATTTTTCCTGGCACTGTCACTCAGGTAGCTGCTGTCACATATGC
TCCGGTTGTTGATCAATCAAACAAGTTAGAGTCTGAAGTGACCAATTTAA
GCATGAACTGTAAAGTCTTGGTGACGACCAATGACTCGAGCAATTCTCAG
ATTGAGGTTCCTTGCGGTGATATAATCAGCATCTGTTCAGGCCATGGCTC
TGATCATCTCCATGAAGATGTGGATACTGACCTTGATATCCAGCCACGTT
CACAACTCAAGGTACTTTATTTTTTCTCTTTCAGGATCATTAATCACCTC
AATATTAATGTTTTGTGTGCTGAACTGCAAATATTATCTGTTAAGCCTGT
TTTCAGTGTGCCTATTATCAGATATATTCTAACTGCTTAATTAACAGTAA
TGTTTACTCTACTTCTAGGAGCTGCAATGAGGCAATGACTTATACAGCTG
CTCAGTGTCTCTTGCAGTCCGTAATCCTTGAGGTTGTTATTCTTATTCTT
AGAAGTAAATTATGCAACAGACTAAAATTCTAAAGATATAACTTATTAGA
GAGAAATAAGAGTTTATTTTGGTCTTAGCTTTAGCAACGCTCTCAGACAA
CAGCAGCACGGGAATTGGTTTGTACGTATGTATGGGTTTCTTTTTCTTTA
TCACTAGGTGTAAAAGGGTAATAAAGTAAAGATAGACAAGGGTAATGTTG
AAGTGATAGTAACAATTAAAAATAGGGGTCTCTAACACTTTCTCAAAGGT
TGTCAGAATATATTTTGATGGCAAAGCAAATTATAATATTTTTCTTTTGG
AATTCCAGCCACCAGGTGAAGCATGTAACATGCAAACAAGGTGCAATTAT
TGTGTAATTTATGCGTGACAAGAATGTAGGATCCACATTATATTTTTCGA
CTTGCAGTAATAAACACCCGGCCCCTCCCCCTCCACCTCATGTGAAATTC
TTGTGTTTAGCTTTTTAATTGTTAACCTTGTATGAGCTATATTACTAGGC
AGGTTCGGTGCTATTGCATATTCATTGATTCTGGTGAAAATAATCAGTTG
CTCTTATTTGCAGCATTGATGCATTCTGGTACTTGCCTTGTGTATTGTAT
ATTAATAACATAAGTAGGTGGAATTAGTTCATATTGTAAGCAGAGTAGAG
AAGTCTATTTTTCTAGTAGTTATAGTCCTTGGCATTGTGATACTTCTTGC
TCACAAGATTATTGTCTGTCTGTTTTTTTACTTCTTTGGTGCTTGCTGAA
TTATGCGCTTATAATGAATAGGATAAGCAAAGATGGTTGTGCCCTGTTTA
CTTGGATAATATTATTTAAGGAAAAACTATGCTTTGAACTTTATTCTCCT
GTATGATATTATATGCAGGCATTGGAAATGGCACAACCCGATGAGCTAGT
ACTTCTGAATTGGAGATCTCATGGCAGGTCTAGGGACATGTCTGTTCTTG
AGGAGCATGAGGTCCTATTTCCGATGGTTGAAATTGGAAGTCATCAATCT
CAATATATCACTGTCAAAAATCCCAGCCACCTACCGGTTGTAATGCAGCT
TATCTTGAACTCGGGGGAGATTATTGATGATTGCAGGGACTCAAATGGGA
TTTTGCAGCCTTCACTGGTTCACAGTAAGGATATTGCACCAGCAAGGTAT
GGTTTCTCGATAGCAAATAACGCAGTAACAGAGGCCTTTGTCCATCCTAA
TGGCAGGGCAACATTTGGTCCAATTTTATTTCAGCCGTCAAGCCGGTGCT
GGTGGAAAAGTTCAGCTCTAGTTAGAAACAATCTTTCTGGTGTTGAGTGG
TTAAGTCTGCAAGGTTTTGGGGGTTCACTGTCACTTGTTCTGTTTGAGGG
ATCATATCCAGTGCACAGAATAGAATTTGATTTCAACATACCCTCATTTT
TTAATCTTTCATCTTCAGGCATGCTAAACGCAAACAACAGCAGTGCTTGT
TCACAGCCATATTTGAAAGAATTCTATGCAAAGAATACAGGGGACTTGAT
TTTGGAGGTGAGCAAAATCGAAATTTCAGGGGCCCGGTGCGAGTTGGATG
GTTTCCTTGTACATGCGTGTAAAGGTTTTGCTCTTCAGCCTAACGAATCT
AAGAAACTTGTTATATCATATCAGAGTGGTTTTTCAGCAGCTATTATACA
GAGGGATCTTCAGCTTGCTTTGTCGACTGGTATTCTTGTGATACCAATGA
GAGCAAGCCTCCCCACATCAATGCTCCATGTTTGTAAAAGATCACTTTTA
TGGACGAGGGTGAAGAAATATTGGCTTTTGGTTGTTGTTGCCTCTTCCTT
GATGTTACTTATAGTTCCACGCATCGGCTCCCTGGTGCTATCTTCTTACT
CCCAGAACCATCTATTTAGTGGCAGAAAATGCCCTATCCCCACTTTAAGT
CATCGTGGAGATTGTTCCTTTTGGAATTGTAATCACAGAGACAGTAGCAA
GTTTACATTGCCTGCTAAATTAAGTGGGTTTTTAAGGTTGTTGGGCAGAG
AGGCGTTGGTGACAGAGTCTGGAGCAAGATGTTTAGATGGTCAATATATT
GAACCAGAGCAGGAGAAAACTGTTACATCTGGTAATTTGGCTTCGGGTAA
TTCAAGCCAAAAAAGATGTGTAGTAAATCCTCAGAAAGAAAGCAAGTTGG
GGGTATCCTTGTTGTCCAAGTCAGTTGCACTTGAGAATTCAGCTATGCAA
GATGTATCCGAGTCTGAAAAACTCACAGTTAAAGTTGGAAAAGATAAAGG
AAAACGGCGAAGGAAGAAGAAGGGTTCTACTTCAGGATTGACAGGACAAC
CTGAAGTTTCGAGTAGTCAAAGTGGCAATTCTACACCATCATCTCCCTTG
TCCCCACTCACACCTTTTAATTCCAGAAAATCATGTTCCAAATCTCCTGA
TGTGGATCCTTGTCTTGAGGTGAAGAGTCCATTTGCCAATCCGCGACACA
AGAAGATTCCAGGCCCGGAAACGAGTTCGAAATCAAACATGTCAGATCGC
ACAGGTTCTGTAAAGTATGGAAACAACAGTTCAAGTCTAAATAGTACAGT
GAAGTCTCCTACACCTAGTCCTAGACCAAGACGAGTAGCTACACCGGTGC
TATTACCTTCAGCAACCTTTCCTTCTGCTGGCAAGTCCTCCCCTAGTATG
TTCACTGCTACCCCTCTTCCGTCTTCAACATCTCCTATTGCTCCACATGC
TCGGGCACCTGGTTCGAAGCTTGGTGATCAGAGAGTAGTTAGAACACAGG
ATCAGAAGAAAACTGAAGATACCTTCCAATATGATATCTGGGGTGATCAT
CTCTTCGGTGTCCACCGAATGCTGAAGTCCGGAGAAGTTTACACCAAGTC
GAGGTTTGCTGCTAAGTCAGAGCCCAGGTTCCCTTCAACCTCTGAGTCCG
GGTTTGCATCAAAATCCGACTCCAATAGTTTCTTTGTAAGGGGTCCTCAG
ATCATAGCACCAAACTCTCAAGTTCTTGGTTCTTATAAAGAAAATTAATA
CAAGCTTATTAGAAAATTA