| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017371762.1, is a part of gene, LOC108203053. |
| The genetic_marker, MK006340 K3784, is located in gene, LOC108203053. |
| The mRNA, XM_017371763.1, is a part of gene, LOC108203053. |
| 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_017371762.1 | XM_017371762.1 | mRNA | DCARv2_Chr9:30455724..30462981 |
| XM_017371763.1 | XM_017371763.1 | mRNA | DCARv2_Chr9:30456160..30462981 |
GTTAAATTTGGAAAGTCACCATCTTCCATCTCCCATTTGCATTCTTACAT
GAGAGGATAGCCAAAGACCACTCCTCTCACCATTTATATAAATATACATA
CAATCTATACACACAACACAGGCATCATATCATATCCTCTCTAGTGCCTA
GATGTAAAATCCACCTTCTCACACTACTTTGTTCCCTTCTTTTCTTTGTT
AAAATATAATAAAATTTATATCTATAGTATTCAATATTACTGATTTTCAA
GTACAAAATACAGATAACAAAAGGGGTTCTTCTAGCCCTCTTCTCAACTT
ATGCATCTCTGATCTTCGATTTTATCCGTTTTTCTCATCTGGGTCATTGA
AATTGGTAATCTACAGCTTAAATTTAAGGCCTTTGATTGTTTTTTGTGAG
TAAAGAATTGGTTTTTATTAGTGAAATTGTAAAGCCGATGCTTTTCTTGA
TTTTTGTGAGTTTTGGTGTTGTGGGTTGATTAGTGATGGATCGGTTGAAG
ATTTATAGTCATCTAGTTAATCCAAGATCGCCCATTTGGAATTGAATTAT
AAGAATTGGGTTGGTTTTTGTATGATGGTTTGATGAAAGATGGTGCTCTT
TGATTTAATCTACATTACGAGGTTTTGAAATGAATGTGTATTTGTTGATG
AACAGATGAGTTCAGTTTTTTCTGAAATTGTTGAATAAGGTGAACTCGAC
TGAGTTTGGATTTGTTTTGGTCTGCTTGTTAGGATTTAAGTAGATCTGTT
ATATGCTGTTTATTTGCCCCATGATCAGTCGCGATTCTGGAAACAAGTTA
TGAGTGCTTGCTTCCGAGATTGTCATTTTGTGTATGTTTATAGTTTTTCG
TTGGAATACAAACTAGTTTGGCCAGCAAACATCAGACTGGTGATTGTATT
ACTGAGACGGGCAATTTGTAGTACTGTGAGAATTCAGTTTTTTGAGTGCT
TATACTGTGAAGTATTTTTATGTTAAGTAAGTTGTCTTTGACTGAATGAT
TAAATTTTATTGTGCAGAATGGCAATGGAAACTGGAAAGCTTTTCATTGG
CGGAATTTCTTGGGACACCAATGAAGATAGTTTGAAAGAGTACTTTCAAA
CATTTGGAGAAGTTGTTGAAGCTGTGATAATGAAGGATAGAGCAACAGGC
CGAGCCCGTGGGTTTGGTTTTGTTGTATTTGCTGATGCTGCAGTTGCGGA
AAGAGTTGTCAAGGCGAAGCACATGATTGATGGCAGAACTGTAAGTTGCA
CATTGAAATTTGTATAACATTTTGCTTAGGTGTCACTGCAAATTAAGAAA
TGATTTTCAGCACACAGGAATTTTTTTATACAACTAATTATGTGCTGCAA
TTGTGATACGATATTGGTAGTTAAATGATTTTGCTGGCAAATTTTTGTTT
ATGAATAAAATATATGTAGACCGAGTTGTTATCTCTTTTTGCTAAATAGT
CTTAGTTAATATTACTGATTTACTAATTGAGTAGACTCTCTTGTAACTGA
AAGCACCAGCTTAGAATAAGATATGTGGTGTTTCTTCTGAAATCAAGTGA
TCGGCAAGCTTTAAGAAAGAAAATCACAATGCACATGGAACCTTGATGTA
TATTTGACTGAGAAGTGAAGCAGCTTACTCTATAAAGATATACCATAACT
GAATGTTTTGCTATGGTAACAATTGCTGCCTAGAACCTTGACAAGAGCAG
TAAGGCATTATGTGCATTATTCTATGAATAATGTACACAATTACAATCAA
CTGCATATGCATGTCAAGGTACGTGCTAGCCTGATAGCACATAGTGTATA
TTACTAAGACGGTCGAGACAACATCAGGGCCACCCACGGAGTACAAAGTA
TGCAATTGAGTTGAATGCTGCTCCAGTTATATTTTAATTGGAATTTTAAA
AGGAAATGAAGTTATGGTTTTTAATTCCTAATTTATAAGTAGCGAATGTT
GAAGTTCTGTCTGAATAATGTCGAATATTAAATGATTCATGCTAACTATG
AGTGAGTTTTTAATCACTGAGCTTAAAAGATGAGTAGAGTTGCATGCTGA
GTTCTTTTACACTGGACATGAAAATGCACACTTTTTATCCAGTCACGTGG
CTTTATTTTTCTTCTAATCCCACTTATTACCAACATCACGTAGTTAAAGT
TCTTTCAGTGGACAACACTCCTTGATGATCTGTAACCATAATCCAGCATT
TTATTACTTGTTTTACCCTCAGGTAGAAGCAAAAAAGGCGGTGCCTAGGG
ATGATCAACAGACTCCCACCAGAATTAGTGGCAGCATTCAAGGGTCTCCA
AGTCCTGCTCGCACGGCCCGCACAAAAAAGATATTTGTGGGAGGCTTAGC
ATCCACAGTTACGGAAAATGAGTTCAAAAAGTACTTTGATCAATTTGGGT
GTATCACAGATGTTGTGGTGATGTATGATCACAACACCCAAAGGCCTAGA
GGTTTTGGATTCATTACATTTGATTCAGAGGAAGCTGTGGACAGAGTCCT
TCTCAGAACATTTCATGAACTCAATGGTAAAATGGTTGAGGTCAAGCGTG
CTGTTCCCAAAGAGTTATCCCCAGGGTCAATAAAGAACCAATTAGGCGGA
CCAAACTATGGAGTAAGCAGAGTCAGTGATTTGCTTAGTGCCTACACTCA
GAGATTTAATCAGAGCCCAATTGGAAGCTATGGACTGAGATTGGATGGTA
GGTTTAGTCCAGTTTCTGTTGGTAGGAGTGTTTATCCTCCAATCGGTTCT
GGTTATGGTATTGGACCAAATCTTGAGCCCGGTTTTGGTTCAAATTTTGA
GGGTGCTGGACAGTTATCTAATATTAGCTATGGTCGTGGTCCAAATCCTA
TGCAGAATGGGAGTCCAAACAGGTTTAGTAGCGCAGTTGGGTATGGAGTA
GGTAGCAGTGGTTATGGCATAAGTTCAATTAGCAGGAACACATTGGGGAA
CGGTAGTGTTACTTATGCTAAAAGTCCTACAAACTCTGGCCCTTTTACGG
GTACTGGAGTTGGAAATACTGGGCTTCTCAGTGCATTTGGCAATATTGAA
GCTATTTGGGGTTCACCTCCCATCTCAGTTCAAGGAGGAGGAATGGCTTC
TGCTTTGAGCAGCGGAGGCAGTTTAAATTTTGATAGTGCTGACAGCAGTC
TTGAGTTGGGCCCGATAGGTTATGCCAGGAACACAAGCAGCAATGTTGCT
CCAACATCTTCTATGTATGCTGCTGCTGCTAGTAGTAATGAGGGGGATTT
TGGGAATTTCCCTGGTGGGGGTTTATTTTATGGTGATCCAGCCTGGCGAT
CATCATCCCCAGAGCTTGATGGTTTTGGCCTGTTTGCCAGCGAACTCCGC
AATGCCGTTTCTGATGTTACCCCTAGAGATGCTGTTCATTATGCTGAAGG
ATATAGTGTTAATAATAGATCAACAAGAGGTACTTTCCCTTTCTTTTTTT
CTTTCTTTCTTCATTCTTCTTTTCCTTTCCCTTGCAATTCAGAACTTTTA
ACGTACAAGATCTAAAGGTACATGCCCTTTCTTTTCTTTCTATAGCTTTC
CTTTTTTATTTACAGTTCCATCAGTTATGTGCATGAGGTATGCCCGCTGT
TTTTCTGCTGTAGTTCGAACCAATGATGCTTAGTGATCAAATTTACTGTC
TTTATCTAATAATATAGTTCCTTGATGCTTCCTCTGAGTACTTTGTATTA
TGTTTAGACTTTAGAGTACTTAATATACATATTAGGTTTAAAACCCAACA
CCCATTTAAAAAGTTAGACGTCTAACATGGTATAGGTTTGGGTATACTGT
ATACATACTGAGATATTTTAATAATTATTTCCCAATTTTGGGGACACAGC
TATAAAATTTTATATCCCAAATTTGGACCCACAGATTTCATTGTAACAGT
CATTCTTGAACTTCTTGCCCTTATGTGATAATGAGTGTCATGACTTGGTA
GTTTGGTGCAAACTACAAATCTATTGGAGCTTATAGAGAAAAATAATGTT
TCTTTTATGCGTACATTGAATAGAAATATATTAATATAAGCATGCTTTGT
CAATGTATTGTTTATTAATGCTTTTTCTGTATTATTTGGATTGTTTTTAG
GCCCCATAAACAGACCAATATAATCCAATTTTTAAGTACCAATGTAAATA
GGTATGATCTCCATAATATTACCCCTATTAAACTCTTTGTTTATATATAT
TCAGGCACAATAAATCAACAAAAAAAATGATCACACACACACATAGGGGC
TTACTCCACTAGAAACTAAATTAGCCTAGAAACTAGAAACTAGTCCTTGA
CCAGTTTTTCATCACTGTTCTTAACTACAAAAATCACTCATTTGTATATT
AAAAATCACTAATTTATATATGTAAAATCTGACAAATATAGATATATAAA
TACACATATATACAACGTATATCATCATCATCATCTTCAATAATACTACA
TTGATGAAACTCTCGGCATCATTATCAACCCATTCCACTACTGACGCCTT
CACTTACAACCATAATTTGCCTATCACCATTTGTCATCATAACCTGCCAC
TACTAATGACTATCTACCATCATCACACACCTCATCCGGTTATTTGCTAC
CATCATAGACCTTCTACAAGATTACAACTATAATTAATCATCAATAATCG
ACCACCAATGTCAATCATAAGTAAATTTTCTCAATATATTAAAAATAAAA
ACTGATGAATACACTGTATAAAATAGTGATTAACATCATAGAAATTAGTG
ATATATGCGGTTATAAACAGTGATTTAAGGAATCGTTTCTAGTTTCTAGA
ATAAAATTGGTTTCTATTTGATCACTTGCCTATATATATATATTTCTTAT
TGGGGATATAGTTGAATTTAACTCATTTTACAAACAAAAGAATAGCTAAT
ATTTGAAGTAACAATATTTCTCTAAAAGAGCTAATTACATTAAAGATAGG
GAGTAGGGAGTACTCAGTCGCTTGTTTGTTTTGAATATAATTAGACAATA
TAGAGTATTTCTTGTGTTTGCATATCAATTAATACTCAAAAAATATCTTC
ATGTAACTTTAAGGTGTCCAAATATTTAATTATCTGTGCATATTATTTTC
CATGTGTATAGTGAGTGTACAAAATGCAGCAGTTGTTAATTATACATAAA
AGCAGTTTACTATTGACAACAAAATCATCATTATGCTGTAACGTTGAACG
TATTCAGTACTTCCGTTTACTTGATCAATAACTTGCATAAGCCAGCACTG
ACCAGCACTTAATATGAGTTGGTAATTTAATGTTGACAAAACAGCTACTT
AGGCTCTAATGTAAAAGGTATTTCTGTACTTTTCTTGATATCAAATTTAT
TGCACTAAAGAGAACTAAATATGAATTAGCTTTTGCAACACAATCACTTT
TTCCAATAATTGTATAGGTGTTTCTGTAATTTTATTTTTTCGACCCAATA
AATTCAATAAGCCAGCACTAAATAATATTTGAGAAATTTATGTGCATGTT
CCTGCCCTTTTTAGATAAAATCAATAAATTTTACATGATATCTTTTAATT
TTGTATGTCTCTGTTGCAACCTGATTGATTCATTGAATAAGATTTAATAT
TTCTAAGTTTGCTGCTATAATTAGGCACAAGAGTGTTTCTAAAGTGTTAT
AATTTTCTCTTGTCTTCTATTTACTTTAAATCATTTATTCAAGCATGTTG
ACTATATAAAAGGGATTTGCTATCATTGTACTCAGTACTTTCTTGTTTTT
TGTTTGATCAGGGATGGCTGCATAGGACGATTATTATAGTGACAGAAGGT
TATGTGGGTGAAAATCAGGTAAATAAGACTTGCAGGACTTTGGTATTGTA
GATCAAACATGTAATCACTTATTAGTAAACTAATCTATCATGTTGAATTG
TCTGGTTGGATATTTTACCTGCTCGATGCAGAATGTGAGCATTGGGCTGT
GAATGTGAAAAATAATAAATGTCGTTTCTACTTCGGCATCGGTGTTTTTG
TTAAATTTTATTTATTACATTTCTTTTATCGGATTGATTTACTAATCACA
TGTATTTGTGGAACATCACTTAATATAGTACAATGTTGCATCCAATATTT
TACGTACTGTGAGAGAAGATGAAATTTGGTAGAGCTTCACAGGATAAGAA
GAAAAGGGATAAAATTGATTGAACTATTTTAACCAATGTAGGTTGAATGA
GGCGCGAAAGAACATAGAGGACGGGTTAAATTGTTTGAATTTTTTTAACA
ATTAGATACTGAAGGACTGAAGAAAAAGCACATGTAACGAATAATAGAAG
GTTGGTGGCAAGAGGAGACTAGACTGGTGGATAAAGAACTCTAAGATGAA
ATATATAGGAGAAGAAAAATCTGAAAATCACGCAAAAGTAATGGTGTCTT
AATCTCTAAATGCCATGGCTATTGCTCTAATATTCATAGCTGCTATGTAC
CACAGATATTGATTACCCTGCTTTATGTGTAACGAGTATGACTACGTTCC
AATCATATCATAAAATGCATACTTATATAATTGCATTGGTTAACGAGCGT
GCTAATATATATATGAACAACCTAGTTGTCATTGTTTGATTACTGAATTT
ATTGATTATAAAGAGTGTCATATTTGAAAAGGGCCTTGTGGACATTACAA
TTGGACTGCCTCTGTACAATACTATACTTTTATCCATATCTAATGTTCTA
CACTAGCAAATTAAGTTAGTACATGTGCTTCGAATGCTATTTCCTATTAT
AATATAATCTTGTCAACTTTTGATACTTTGAATCCTCTTAAGATTATTGA
GTATTCGACAAGTAATTATTATTTTCTGTTTAAGAAATACACATAGTTAT
TATCCATATATTGTGTAAAATTTTCTTGATAAAAATTTGGAATCAATTTT
GCAGGAAACATGTGAAGTAGGCATTTGAGTGTGCAGCCCATTGAGAGGAG
AAGTACATTTGATTAGAAGAGCTGATTGGAACATCTGTTTGTCTGTGAGA
AGCATTTTGCAGAAGGTTTCCATAAGCCTTAAGCTTGAGTTTTTTCTTAT
ATAGAGTTATTTCATGGAATTTAATTAAAATGTAAATTACGATTGCGAAG
GTGACGCAACAATACATAAAAGATGAAAAAAAATATTAGAGAAGAACTTT
ATTAAAATTTTACATACTTTTTACAATGCTGTAATGTCCAGCAAAGTTGC
TGAATATTGTTTAGTATTTTGTTACGTTTATCGGAAGTTCTTACTGGTAG
ATCTAGA