| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017367671.1, is a part of gene, LOC108199725. |
| The genetic_marker, MK001282 BSSR-125, is located in gene, LOC108199725. |
| 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_017367671.1 | XM_017367671.1 | mRNA | DCARv2_Chr1:49405487..49414074 |
AATTCAATGAACTAGAGAGGAGGAGGCTCTCTGTGTAAAATTACATGATC
TGGATGCGTGAGTCTCAGTTTTTGATACAATCAAAAAATTTACCCAGAGA
ATCTTAACCTATGAATGATCCAGTACATTTAGTTCAGCAGTAGCCATCCA
TTTCCTCATTATGAAATACGCTATAAGAGATAACCGTTGCTTTTCTAAAA
GCAAGAAGTAGCTATACTATATTATGCTCTCTCGCCGTCTGGTTATTAGT
TCAGAGAAGAATATGAGGGGGAGCTTGTCTTCTGTTACTCCAGCCTCCAG
AAAACTATCTTTAGTTTTCATGGTCATCTATACATTATTGTTATTTTTAA
GCTCATCCGGTTGCAAAGCTGTATCTTCTTCTTCTTCTTCTTCTTGTGGT
AATATTCAAAACATAAGCTGTCCTTTTACTCTGAAAGGTGATGATCAGCA
ATGTGATTCTTCTTTCTTCACTCTGGAGCTGTCTTGCCTCAAAAATCGTA
CCATCTTATATTTACTTGAGGATAAGATTTTTTACGTTAAGAGTATCGAT
TATGATAATCTTTTGGTTAGGATTGTTGATCCAGGCCTTGAAAATAATAA
CTCTTCTATTAAAGAGGATGACTTTCTGGCATTAGACCAAGGCTATAAGT
TAAGGAAAGTTAATCAGCCTATTACAATGATGGAGTGTCCGTCTCCTGTA
ATTTCTACCCGATACATCAATATCACTTCACCAAATTCTTCATTCTCTTC
TTCAGTATTGGGAAAATATTATGTTTATTCTTATGCGTATATAGTGGTTG
GATATGTAGACATAACAGAAATGGAGGACAATTGCAGGATTAGCAAGGTG
GCCTGGGTCTCACGCCACTCGCCTTTTAGTAAAGTCAGTAAAGTCTTCTC
TAATTTTTCTGAAATTCACGATGCATTGGTTTATGGATATGATATCCCTT
GGAGTTACTTCTACTGCTTGAAGTGCCATGACGGATGCGACACTTCTTCC
CCAGATCATCATCTTTGGGCTTGCATAAGCTTTAGCACGCCGTGTAACCT
CCCTGATGGGAGCTCATACCATATTACCCTTTTATGTAAGTACATAGCTT
TTCCCTATTACTTACATTATTCCCATATTAAACTTTGCTAAATCAGTAAT
ACATGATTCTTTCAATAGTTTATTTTCTATATTACTAACAGAGATTTGGA
TGAACCATGTAGGCATGCCTCATAACTTACGCGTCACAGTTCAGATACTA
AAAAGTGAGTATTACAGCTTTTGCTTAATTTAACTTGTAGAATCAGTTTA
TTTGCTGACTTTGTTTCTCCAATTTTGCATTATTTGTTGTAATTATGGTG
ATAACTTGGATTTTTCTGAAGTCGTGAGAACACTTTCAGATTGAAGTTAT
TTGTGGTTCACCAAATAATTCAATCGGATAAAATCAGAAATTCTGCAAGA
AGAGAGAATGTGTTTTGTTGTGTATTTCAAATGAACCATATCCTTGAAAT
GATCAATGCAACATCTATATATAGATGTCAATAGATGTGTCTTTTGACAA
TAGACACATCTTAATCCAAATAGATTTGTCTAATGGCAATAGACATGTCT
TATCCTAATAGATGTGTCTAATGTCAATGGATAAATCTAATGCCAATAGA
CACTTCTCTTCCAATAGATGTGTCTAATGCCAATGAACATGCCTCATAAG
CACTTATAATCATAATAAACTCGAACTAAGCATACACTCCGTACTCTCCT
GACTTGTTCGATGTAATATTATGATTACATTGATCAACTAGTTAATTCAA
TTTACACTAAAATAACCAACAATCCTCCCCCATTTTAGTGTAATCCATAA
TCAACTAAACAAAATTACAACAAATAACAAAGTTAGGCATAAATGAAATA
TCATGACGATTGAATTTCACATTAGTATATTACACATTTCAAATATTCGA
ATATCAAGGTATCGCTATGGATTGAACCTCTACTATTCACAATGAATACA
TGAAGATAATATACACATAACTTTACATTCTCAAATGTTCTTACTTGACA
CTATATTTTACTAGCCTTGTGTCCCAATCCTTCTTAAGCATATCAAAGCC
AAGTCCAAGCTTCTTGAAGCGGCTAAACTTCATGCTCAAATAGGTAGTTC
TTTTATTCTCGCACCTGCATATGCGATTTTTCAAAAGAACTATTAAGAAG
ATAGACTTCAACCTCCTTATCTTGCAGGTCTGAACACATAACTTGGGATG
ATGTTGTAATGCGTTCCAATCTCTAGATGTTAAGTTTCCACATTGAATTC
AGCACCTAATGTAATCCTAGGTGAGAATTGGGTTTCTCAACATGAGAGAC
TTTTAAACGGACTTTAATCCCATCCCCACAGCCGACTTGTGCACAAGATC
TCTACTCAATCCTTTGGTAAGATGATCGGCTAAATTATGTTGAGTTCTTA
TAAACTCCACTGATATAACACCGTGAGTGATAAGCTCACGAATCATACTA
TGTCTAACACCTATGTGTCTAGATGTGCCTTTGAACACTTGTCTATAAGC
ATTAGACAAGGCAGATAGACTATCACACCTGATTGATATGGGTGATATAG
GTTTTGGCCACAATGGAATTTCATATATCAGATTTCTTAGCCATTCAGCT
TCTTTACCAGCAGCTGATAATGCCACAAATTCAGATTCCATTGTTGAGTC
GGTAATGCAACTCTGTTTCTTTGATGACCAAGAGATAGCACCTCCCCCAA
GGAGGAATACCCATCCACTTGTGGAAGAATGATCTTCCTCATTGGAAATC
CAACTTGCATCTGAATGACCTTCAATAACCGAAGGAAATCCAGTATACGC
CAAACCATAATCCATGGTTCCTTTCAAGTACTTAAATACTCGGCTTAAGG
CTTGCCAATGATGTGAACTTGGTTTGCTAGTGTACCTACTAAGCTTTCCA
ACAGCATAGGCAATATCTGGCCTAGTGCTTATCATGGCATACATAAGACT
ACCAATAGCCCTTGAGTACTCAAGTTGAGATACTGAAACACCTTTATTTG
GTAGGAGTTTAATACTAGGATCAAGAGGAGTGCTAACTGGAGAACAATCC
TTAAAATTAAATCTTTTCAAAATCTTCTCAATATAATGAGATTGAGAAAT
TGAAATACCATTATTCTCACGCTTGATCCTTATACCAAGAATCACTTCAG
CCTCCCCCATGTCTTTCATATCAAAATTAGATGACAAGAACTTCTTGGTT
TTATCCACTTGATTTTGGTCTGTACCAAAAATCAACATGTCATCCACATA
TAAACAAATTATAACTCCTTTACCAGAAGAATCAAATTTGCTATATACAC
ACTTGTCTGCTTGGTTAATAACATAACCATTAGACAAGACCACTTTATCA
AATTTATCGTGCCAATCCTTAGGTGCTTGCTTTAGACCATAAATTGATTT
CTTCAATTTACACACCTTGTTCTCACAACCAGGCACAACAAACCCTTCAG
GTTGTTTCATATAAATCTCTTCATCTAATTCACCATTCAAGAATGCAGTT
TTTACATCCATTTGATGAATGACAAGGTTGTGTATAGCAGCAAGTGCTAT
TAACAACCTAATAGTTGAAGTCCTAGCAACAGGAGCATAAGTATCAAAAT
AATCAATCCCTTCCTTTTGTCTAAAGCCTTGGATTACCAATCTGGCTTTA
AACTTATCTATCGAACCGTCCACCTTTATTTTCCTTTTGAAGATCCATCT
ATTCCCCAATGCTTTACAGCCAGGGGGCAAATCACTCAATTCCCATGTAT
TATTATTCATGATAGAATCCATTTCATCCTGGATAGCTTCCTTCCAAAAT
GCAACATCTCTCGATGTCATAGCTTCGGTAAAAGTTTTTGGATCCTCCTC
AATAATAAAACAATATTGGTATTGATCTTTAATTTCATCTCTAGAACCCT
CAACTAGATAAAGATGAAAATCATCTCCAAAAGACTTTGCTTTTCTAGCT
CTAGTGCTTCTCCTTGGTTCAGACGGTTGATGAACATCTTCAGTAGAAAC
TGAGTTCCTACTAGAAGAAGATTGAAGCATGTCCCTCGGTCTAGGTATAG
ATGTAAATCTTGTTTCATCAAAGATAGCATCTCTTGACTCGATAATCGAG
TTCACAGGCACATAGTCATTAGATTCTAACACATAGAATCTATATGCGAT
GGAATGCTCAGCATAACCAACAAAGATACAATCTATACCTCGTTCACCCA
AGTTTCTTCTTTTGGGTTCAGTGAGTCTTACAACTGCTCTACATCCCCAA
ACTCTCAGAAAACTCAATTTTGGTGACTCTTTATACCAGAGTTCATAAGG
GGTAATTTTATTCCTCTTACTAGGAATTCGATTCAATAAATAACAGGCTG
TCAACATAGCCTCACCCCAAAAACCCTCACTCAAACCCGAGTAGGACAAC
AAGGAATTAACCATTTCTTTCAAAGTCCTATTTTTTCTTTCTGCCACACC
ATTTTGTTGTGGTGTATAAGGAGCCGTGGTTTGATGTATTATACCAGTAG
ATTGAAAATATACCGGATCATAATACTCACCTCCTCTATCGGTACGTAGA
TTTTTAATCAAGGTACCATGATGATGTAGCTCTACTTCTTCTTTATATAT
TTTAAAGGAGTCAAGAGCTTCATCTTTCGCATGCAACAAATATACATAAC
AATATCTAGAAGCATCATCAATAAAAGTAACCACATACTTTTTATTTCCT
AATGATGGTGTAGAATGAAAATCACACAAATCACTGTGTACCAATTCTAA
TACATCAGACACCCTATTAGCAACTTTAAAGGGCTTTCTAGTTATCTTTG
TTAACATGCATGTTTTACATTTTTCATTGTTTAAATCAATAGCAGGTATG
AGGCTCATTTTAGACATATCCTTTATTCTTTTATAATGTACATGTCCTAG
TCTAGCATGCCATAATTCTGATTTATTCAAATTTAGGCTAGTACTAGTAG
AAGCCATGCAAGAAGATTCATCATTAAATGGAGTATTTACATTCAACATA
AACATGCCATTACATAAGTAACCAAAGCCAACAAAAGTGCCATGTTTTGA
CAAGATATACTTGTCACTTTCATAAACTTGCTTATATCCACAATTATTTA
ATACAACACCAGACAAGAGATTCTTTCGAATCCCAGGAACATACAACACA
TTATTCAAATATATACATTTTCCAGAAGTAAACACTAGCTTAACATTTCC
TAGCCCTTTGATCGGTTCAGTTGCAACATTTCCCATCTTTAAGATAGATC
CATCTTCAATTGGTTGAAATTCCGTGTACCAACGAAGATCTTTACATACA
TGACTTGTTGCTCCAGAATCAATCCACCAAGCAACATTATCATCCTGCAC
ATAAAATGCATCAGATATCAATGATACATAATTCTGACCAGAATTACAAT
TTTTGATCAAAATCTGACCTTGTTGCTTTTCTGGATCCTTGGATCCACTT
GGACCAGCATTAAGCCTTTCTTGCTTACTTTTACCAACCCGACAATCCTT
CTTGAAATGTCCAGGTTTGCCACACTTCCAACATGCAATCTTAGGCCTCT
TGTTGGAAAAGTTGTTGTTGTTTCCTTTGAATTTCCGTTTATCACCCTTG
CTGGTTTTAGGATTCTTATAAGATCCACCATCTTCAACCATATTCACAGA
AGAGTTACCGACTTGGTTCTTGCCCTTAGGATTATTCTCATTTTCTTGAG
TCCTCAAAGCCTCTTCAATTCGGAAGTGACTTCCAAGTTCAACCAATGTC
ATATCTTCTTTATTATGTTTCAAGGTGTGTTTAAAATCCTTCCATGATGG
TGGCAGTTTGTCAATAACACCATAAACAGAGATAGATTCATCCATCTTCA
GATTGTGTTGAACAAACTGTCCCAGAATCCTTAACAATTCATTGTATTGT
TCCATCACCGGTCTAGAATCGACCATTTTGTAATTCATAAAATTACTGAC
AAGAAACTTCTTACTAGAAGCATCTTCTGCCATGTACTTGGATTCAAGAG
AATCCCACAATTCTTTCGCTGACTCAACATTTTGATATACATCGAAAAGG
GAATCAGACATACCGTTTAGGATGTGACCGCGGCAGATGTAGTCATCGTT
TTCCCATTTGCAGCGTTGCCTTGTTTGTTCAATAGTTTCATTCTCAATCT
CTTCGGGCATGGGAGTACTTAGAACATACACAACCTTTAGCGTGGTCAAC
AAAAAATGCATCTTCTTTTGCCATCTTCGAAAATCTTGACCCTCAAACTT
GTCCAATTTTGCAAACTTACTTGTCATGTCTTTTGCAGATTCTCCGTTCG
TCATCTTCAGAATAGAATAACTTCAATCTTTGTTGTATTTATGGTGATAA
CTTGGATTTTTCTGAAGTCGTGAGAACACTTTCAGATTGAAGTTATTTGT
GGTTCACCAAATAATTCAATCGGATAAAATCAGAAATTCTGCAAGAAGAG
AGAATGTGTTTTGTTGTGTATTTCAAATGAACCATATCCTTGAAATGATC
AATGCAACATCTATATATAGATGTCAATAGATGTGTCTTTTGACAATAGA
CACATCTTAATCCAAATAGATTTGTCTAATGGCAATAGACATGTCTTATC
CTAATAGATGTGTCTAATGTCAATGGATAAATCTAATGCCAATAGACACT
TCTCTTCCAATAGATGTGTCTAATGCCAATGAACATGCCTCATAAGCACT
TATAATCATAATAAACTCGAACTAAGCATACACTCCGTACTCTCCTGACT
TGTTCGATGTAACATTATGATTACATTGATCAACTAGTTAATTCAATTAC
ACTAAAATAACCAACATTATTACAGGCAACAACACCAAAAAAATCATTGG
TAAGACACTTCTTTCATTTTTTGTTTTGCTTTTGAAACTCAATTTTGTAG
GAGTTATATGTAACATGGTGTCTGTTATACAAATTTTAACTAAGAATCCC
CAATCACGGACAATATACCTTGCAGATGTTGGAAAAATTAATGAACATTT
TTGGTTTGATTACGGAATGGTGCAGAGGCACCTCTATTCACAGTCCTATG
AGAAACTATTAATACCATAGTATAACAAAGCAACTCCCATCTACAGTCCT
ATGACAAGTTCAAGTCCCTTGAACTTGTATACGCTTATGTGGACTTATGT
CAAAAAATTTGGTTAACTTGCAGGAATGTTTCTTGCTGCAAGATTTTCTT
TGGGGTTACCGTTCTTGCTCGCTTTCTTGACTTATAAAGCTAGGAGAAGG
CATTTATCAATGTACAACACCATTGAGGATTTTCTTCAAGCTCAAAACAA
CTTGATGCCTATAAGGTATGCGTACTCAGACATTAAGAAGATCACCAATA
ATTTTGGAGATAAACTCGGTGAAGGAGGTTTTGGCACTGTGTATAAAGGA
AAGCTTCGTAGCGGTCTTCTTGTAGCAGTAAAGATACTGGGCAGGTCTAA
GGCTACTGGGAAAGAATTTATTAATGAAGTTGCTACAAGTGGAAGGATTC
ATCATGTAAATGTGGTGGAACTCCTTGGCTTTTGTTTCGAAGGTCCAAAA
CATGCTCTAATATATGAGTTCATGCCTAATGGATCTTTAGAGAAATACAT
ATTTCGTAATCAAGGATCAGAGGAAGAAATTGTTTCCCTGAGTTGGAAAA
AGATGTACGAAATCTCCTGCAAGGTGGCAAGTGGAATTGACTACCTACAT
CGAGGTTGTGACATCCAAATCTTGCATTTCGACATCAAACCTCACAACAT
TCTTCTTGACAAGAATTTCAATCCAATCATTTCCGATTTTGGGCTAGCAA
AATCATATGCCACAAATGATAGCACCGTAACTCTCAATGCAAGAGGAACA
ATGGGTTACATGGCTCCAGAGATGTTTTACAAAAATATCGGTGGAATTTC
ATACAAAGCAGATGTTTATAGTTTTGGAATGTTGCTCATGGACATGGCCG
CTCAAAGGCAAAATTTGAATCCAATTTTGGATCACATTAGCCAAATTCAC
TTCCCCTCATGGGTATACGACCAATTCAGTGATGGAAAAGAGCTTGAGAT
GAAAGATGTTAACGAGGAAGAAAGAAAGTTGGTAAAGAAGATGATAATCG
TAGCATTATGGTGTATACAAATGAAGCCAAGCGAGCGTCCTTCAATGTAC
AAAGCTATCGAAATGCTAGAAGGAGATGTTGAAGAATTGGTAATGCCTCC
TAAGCCTTTTCGTCATCCACAAGAGGATCCAGCTGAGATCAACAACTCAA
TTCATACTGAGGAATGAACGTATTTCTTCAAGTTTGATTTATGATTTTAT
TAAATCAATCTCATCTCTCAGGCTTTTCGTTAATCGTGAAGCTTCACTAC
ATAAAAGACACTGCAAAGACTGTAAGACCATGTTCGGTTTTTCAAGTACA
CTATACAAATAACCAATTACTTTTTAGACTGGCTTCGCATTAGTCTGATC
CAGGTCCCTGGCAGCCGTATGCCAGGGACCGGTTAAAAAACACACTGATC
ATGGCCCGTTGGATGCATATCCAGCGACAAGGATCAT