| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017396787.1, is a part of gene, LOC108222850. |
| The genetic_marker, MK003630 K1074, is located in gene, LOC108222850. |
| 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_017396787.1 | XM_017396787.1 | mRNA | DCARv2_Chr5:15404756..15413909 |
ACAAGTATTTATGAGTCGAAAAAAAACACGGCAGACAGGGTAGACTAAAC
GCGGCTCAACCAGTCAAAACAATTGCTTCTCGCCTTCCTATCTCTCTCTT
TATTATTTGTCCCCCAACCATCAAAACGACACCGGACTGGTCAACATCGT
CTTCTCCACTTTCAAGTCTCCAGCTCTAACTCATTTCACCTTTACTCAAA
CACACCGATCCTCGAATCTAGGGTTTCGTTTTCAATGACCGATCAAAATG
GATTGACCAGTACTAATTCAACCGGACTTGATGATTCTAAGCTCGTCGGA
GTTCCGATGACTGTCGCCGGAGATTCAGCTGTCGCCGATCAGATGGCTGT
TTTTCCGGTCGAAGTGAAGCCGGAGTTTAAGCGGAAGCGAGGTCGGCCGC
CACGAAGTCAGGCGAAACCGCCGCCGGTGAAGAAGATGAAGGACGATGAG
GATGTTTGCTTTATTTGCTTCGACGGTGGGAGTCTTGTGTTGTGTGATCG
CCGGTGAGGATTTCGTTTGTTGATTAGAAACTTTTCGATTCAATTCGGAA
TAATTAATTTGGTTACTGATTGTGTGTTGTGGTGGTGTATGTTAGGGCTT
GTCCTAAGGCGTATCATCCTGCGTGTATCAAGCGCGATGAGGAGTTTTTT
CGATCAAATGCTAAATGGAACTGTGGTGTGTTGATATATATGATTCATAT
GATTGCAAGTTTTTAGTATTTTATATATATCGTTTTGCTTATCTGCCGCA
GCTTGCTAAATAGGTTTTACGGAACCCTAGGATTTTTTTCATGTCGAGTT
GTCATTCTATATAAATTTACTTAATTAGTTTGCAGTAGCTTCTTTAATTG
GGTGCACTTTTACTTAATTTGTCCGAATAGGCAATAGTTTTTATGAATTA
TTAGGTTTTTCTAATATAGAGGTGTCATTTTATAGGAGTAAAAATTTATT
GAATGAGCCTGCAGTAGCTTCTTTAATTGGGTGCACTTCTACTTTTGTTG
TTCGAGTAAGCATAATGTTGCTTATTTTATGTGTGCCACTTGGTGGACAT
GCCGGAAACTCATTACTTGGGGAGGTACTGCACTAGCAAATGTGTATATA
AAGAATCGTGGTAAACCTAAGAGAGACACACCTGTGCACTAAAAAATGAC
ACCAGGAATACATGTCAAATAAGCATAAAACCTGGTAAAAAGAGAGTTCA
CCGATGCAAAAGGGCATGACAGATGTAAAGGGGCATGTCCAGGATCCTTG
TATATCTAATAGATACTTCATTAATATCCATTTGTCCGAAGTTTTCAGTC
ATTTATTTGCTTCATAGTTTGAAGCTGTCGTACCTATTCGTCATCCTCTG
TGATGCTATTACTAAATAGTGCAAGTTGGTCTTTATGCTCAGAATATTTT
GAATCTGTATTTAATGTTGTACTTGTCCAGTCTCTAACTTATACCATGTA
TCCACTTAATAAGATCTTTTATCTGTATCTCGATTGTTGTGTTCTTCATG
ATGTTGTTGTCTAATAAGGGTTACCTGCATCATTATCTTTCTTGTGGTTT
AATTTTTAGGTAGGAATGTCATTATCTGAATTTTTTTCTTCTTAAAACAT
ACATAACTAGCAGTCTATTTTTGTCTTACTGTTATTTCCCTCAGCTTAAC
AATTCATTGTCAAGGCTCTATTATAGACTCTGTGACTCTTTCCTGAGGTG
CTGTAGGAGCTCAGTTTATTGCAACTTTTGAGCACTCATCTCTTGCTTTT
GTATGTGCGGCCTTTCAGTTTAGGTTTTGTTGGGCGCATATGACATTTGT
TTCTTTAATGTCGAAGGATATGCATGATTATTTGTTTCCTTTTCCTCCAC
ATTATACAGTATGTACTATATACTATTGTGGTATTATATACTCGGAAATT
TTACTATGGCATGAAGTTCAGCTTTTGCTTGTGTTTTAGGTTACAGGCTT
TAAGTTGTTTTGTTTCATTATGACAGTCAGTTGAATTTGAACTTCATTTA
TGTCTTGAATTCCTTTCATGTTAATATTAATAGTTTGTCTTTGTTTCCAT
ATTCAGGTTGGCACATATGTACTGTATGCCAGAAGGCTGCACATTATATG
TGCTACACATGTCCATTTTCATTGTGTAAAGGATGCACAAGAGATTCCAG
TTTCTTGTGTGTGAGAGGAAATAAAGGCTTTTGCACGACCTGCATGAAAG
TTATTATGATGATAGAGAACAAGGAGCAGAGTGACAAGGAAACGGTATGC
ATTATTATCACATTTCTTCTCCTTGTTGGGTGGGTGTATGGAACTTTTCC
GTCTTAAGATCTACATTTTCTCTGCTTGCTACTGCACATCTTGCTTCTGT
TATTTAATGATGACATAAAACTATGTGTTAAAATATAATTTGATCTTAGT
AAGCCCTACTCCTAACACCATGATGTCTTGGGAGAACTGGTCACTTAACA
TGCTCAGACGTGCGGGAGACTCGGGTTCGACTTTGACCCCAGTATCCTCA
TACTTAATTATGGACACAAAAGCAAAGTTATGCCCCAAAGATGGGCGCCC
GTGATCCACTCTCGACCCATAAATGGGCTTTCGAGTGAGGTGGAATGTTA
GAATATAATTTGATCCTGGTAAGCCTTCCTCCTAAAACCTTGAGGTCTTG
GAGAACTGGTCACTTAACAGTATGAAGGATATCTTATTGTTTTTAATGAT
TGTTGGTCTTGAAAATGGCAGTGCATAGCCCAAGATTGGACGTGGATTTA
TCTTAGATTACATTTCAAAAATTTATTGTCTCTGTTCTGTTGCATGTTTA
ATTTGTATGTTAATGGTGAGTACTTGCTTCTGCTTATATTAGCTCATTTT
GAGTTATGCAGGCCCAAGTGGACTTTGATGACTCTCGTAACTGGGAGCAT
CTCTTCAAATTATACTGGATATCTTTAAAGGATGAGCTGTCCTTGACTTC
TAAAGAACTTGCTGAAGCTAAAAGTCCCTGGAAAGAATTTAGTTTAGCCA
GTGCTAGAAAGCAGTCATTTAATGTCCATGGCAGCACAAATAATTTTACC
AGCGCTGTTGTTGACATTTCTTCTGGGCATGTAAAGGTGAATGATTCTAC
AGGACAAAATTCCAGTGAATCTATAAAGCTTCTCAATAAAGCCTCTCTCA
GTACTGGACAACTATATAATGACAATGGTAAATCTTCAGAAGGACGCACG
AATTGGGCGTCTAAACAATTATTGGACTTTGTTGCTTACATGAAGAATGG
TGATACCTCTGTACTGTCTCCGTTTGATGTCCAGGTACTCGTTTTAGAAT
ATATTAAGCGAAACAATCTTCATGATCCATGTGAAAGAAGCCATGTTTTG
TGTGATCAAAGGCTTGAAACTTTATTTGGGAAATCACGCGTGGGTCACAT
CGAATTGCCAAAGCTTCTTGATTTTCACTTCCTCATGAAACAGCAACCAG
AAAATGATGATTTTGTTCGAGGAAGGGTCGATGATGTAGATGCAGTCCAG
GTCCCATCTGATCGAAGTAATAGTAACTTGATGAGTAATGATAAGAAACA
TAACACTCGTAAGAAAGCTGCAGAGTGTACACTTCAGGCTAGTCTGAATG
CATATGCTGCCATTACTGTTTCCAACATCAACTTGATATATATGCGACGT
AGTTTGATGGAGAATCTAATTCAAGTCAAAGAGAAATTTCATGAGATGGT
TGTTGGCTCACTGGTACGGATAAGAATATCCGGCGACGAGCATAAGCAAG
ATATGTACAGACTTGTCCAAGTTGTTGGTAAACATCTTTATTTTAATAAC
ATTTTACTATGCACTTTGCCTTGCTGTATATGAAATATAATCTGATATGT
TTTTTAATGGGAATATGTTTATACAGGTACTACCAAGGTGTCTGTACCAT
ATAAAATTGGCAATACAACATCAGATATCATGCTCGAAATATTAAATTTG
GACAAGAAAGAGGTTACCTCAATTGATGCAATTTCAAATCAAGATCTTTC
AGAGGTGATGTAAAACACTGTGTAATCATAACTCAATCTGGTGGATACGT
ACTTGATTTCCAACTGTAGTTAGGCAGTTACTTCAATGATTTGCTTTTTA
TCGTCTATATATACCTTTCATACACCCTTCCTTTCCCTTCTCCCCAATTT
ACATACAAGAGATGACACCCATACCCAAATATTTTGATTGTGAATGAAGC
TGTGCCAAATGATATTTTCCATTATGAGTAGCTTTTTATATTGACATGGA
ATAAGTAGGACAAGTAGACACTTAGACCTAGTGTAGAACAGTAGACACTT
CGATCTATCGTAGAACTGTAGACACTTGGACCAACACAGCCAAGGTTTGT
AGCTGTTCATTTAGATACATTTGAAGGTTAATGTGAGTATTTGCTCCAAC
TTAAAATAAGCCATGGATGACATTTTATTTTTGTTATCGACATTCTAAAT
ATGCCTTTACACTTCCTTGCACAACAAGTAAATACAATCACAGTTGCTTA
AAACTGGAGTTAAACAGCTCCTATAGATGCATTGATGATCCTTAATAAGC
TTCCCCTCCAGTTGATGTCTTGATGATGTTAAAGCTACAAACTAACTTAA
ATAACTTTCCTATGCAAATCCTACTGCTTCATGTTTGATGACATTTTTTT
GCTATTGCTTATTCTGACCTTTGAGCACATATACAGCAACAATTACGAAA
AACTTAATCTCTAAACCCATTTTTAGTCTCTTAAGTCTCAATGTCGTGGA
AAATTTTGGCTTCCTGTTCTCTTTCAATAAACTTCTCAAGAAGGTTGTTA
GAAACAGGATTTATCCGCTAAATGAACGATGGCTTAAGATTTCTTGCCAA
AAAATTGAGTGGAAGGTTTCCTAGTTACTTAGCAAAAATGAATAAAAATT
TGCATAGTTCATCTGTATATCAAGGTATCTGTGGGATCTTGACATATTAT
ATAATTCCAGGAAGACTGCAGACGGCTACGACAGAGTATAAAATGTGGAC
TTGTGAAACGTTTTACTGTAGTAAGTATACTTATGCTTTTTATATATCAG
TTCCAAGGTATTCATCTTTTTTCTGTTTTGTCCAACTAAAGTGTCTGTTA
TTTGTAGGGTGAGATACAAAAAAAGGCAAAGCAGCTGCAGGTGGCAAAGC
TCAATGATGTAAGTTTTTTTTTATTAATTGTACGTACTGTTAAGTACTCC
TCTGTCGGAATTTATTTGTCTTTTTTGATTTTTTGTGGTAAAATCGACCA
GACTTGTACTGATAAACAAGAATTATTCCTACATGATATTAAATGAACAT
CTTAAAGTAGAAAATATTTACTTTCCAATAATACATTTTCATAAAAAGAT
TCAATCATGTAATATATGTATATTTTAGTCAAAGTTTGGTCAATTTGAGC
ACAAAAGTCAAACAGGATTGATAAATTTAGACAGAGGGTGTAATTTACCT
CTCAAGCATTCTGTTTTTTCAACAGTTATTGGTTGAGTTTCTCCCAACTC
ACTTCTGGCTAATAGAGTTTCAGTTTTCTTCATTAATTTTTTTGCTTAAA
TAATCTGAGGCTACTTTCTGCTGTATTAAATATACTGTGTAAATTTACAG
AGTTTGGAAGCAGAAATGTTGCAGCTCAATCAACTTCGGGACCGAGCAAG
TAAAAATGGACTTGAAAATGAATATCCTTTACTTTTTTTTATTTTAATAT
TAATAATATTCATAATGGTCATTCTTGTTAATTAATACTCTGTCTTAAAG
TTTACTTTAGTATGCACAGTAAATACCTTATGTAGAATGATGATGCTAAG
ATTGCTTCTCTATTGGAAGAAAATAAAATCTTAACTTTGCATTATAATAA
TTTGAATGACCTGAAAAAAGTAGGTGTTGTTGGTAGATGATGATTGTCAC
TGGAACCTATGTCAAGTTTAAGTGGTGTCTCTTATACAGTGCCTACATTC
AGAGTATGCCAAAGTATTATGTAAGATATAATGAAAATGTTATAAAATGC
AGATGAATAGACTACAGATGACTTCAAAAGGTTTTTGCAGCTAGGTAACT
TGAATTACTGGCGTACTTTTCTGGTAATGACGAATTAATGATTAATAATG
TTGTAATTTGTAAGAAATTGATGGTCCACGGCTCCATGCAAAAAGAAATA
ACATACTGAACTCATGCTATTGATCTGTTTACCCGATTAAGCACCTGAAA
CTTTGGTCAAAGAACTCTCGCAAGATAAAGTTTAACTATAACTGGTCATA
ATTGTCACATTGCAACATCAATCAGTTATTAAATTTGTTTTTGCTTTAGC
TGATACACTTGACGTGTTGTTTACTTTACCATCCTATACTTAAGCTGCTT
CCTGCTTGTAATCGATGTGCTCAGATTGATCTATTTGACTTGTTAAGTGA
AAAATTTATAGAGAGGGTCAATGTTAGAGGAACTTTGACAATACTATTGT
TCCTTATGCCCTGCATCATAGTTGCATGCAAAACCAATAGCTACGATCTC
TACCTTTTATAGTGTCCATCCTAAGCAATTCAAGAAAAGGATGTCTTGAG
AAAACTTGCTATCACACTTCGCTTGTCTGGCAAAAGTTCTGTAGACATAA
GTTATGAGTTCATTGACTGTACCATGTTGGTCATTTAAATAATTGCATGT
GGGTTTCCTATCAGTTTGTACATAAAGACAAATTAAATGTTCTGAAAGAA
CGCCTTCCCCAACACAGTTTGTCTGGGTGTAAGTTCATTTTGTTGTTTTC
ATAAGAGAGAAGGTTTTAAATGTTGAAAGTAATCACTCTATACAGCAAAG
ATGATTTCCATAGTTGAATATCTGGATTCTGTGTTATGTTTTCTTAAGTA
AAAGCTCTTGTTATATTTGTCACTCCTTGACAAATTTTTACGTTAAGAGA
ATATGTAGAGAAAATACAGCTTCTGAAGGCACCAGAGGAAAGGCAACGTA
GACTAAGTCAAATTCCAGAAGTATGTAGTGATCCAAATATGGATCCCGAT
TATGAATCTGAAGAAGATGCTGGAGAACATGGTAACAAAAACTTTGCCAA
TTGTATATTCACCACTTTATTATTCCATACTTTTGTCATGACAAGGTTCA
TTCTATCATGTTCGGTCTATTTACTATATAGTTTTCTTTGTGATGTTGGT
CAAAACTTTTCAGGTCATCATGTCAAGCCTTGCAACCCTGAATATGATAG
AGAGGGAAGTGAAACAGTTTCTTTGAGAAAAAGAGATGTTTCAGGTGATA
GTAGTGATAGGCGCTGTAATAGTTCAAGTCCTCCACTTGAGGGAAGCCAA
AACGTGTGTGCTACGTCTTACCCAGATAAAGAAGAGAGTGCTGCCAAAGC
TCTGCAGAGACTGAGCGAGGGAAAATTTGCATGCAGGTCTAACAGCTTGG
AGAGGGGAGGATGCAACAGGCAAGCTGTAGCTACTTCTAATATTACATCA
GAAGCATCATCTGCACCTTTGTCAGACGGGAATACTCTGTTTGCTCCTAA
TGCTGAAATGAAGTTGTGGCATTACAGAGATCCAAGAGGATCAATCCAAG
GACCATTTTCTATTGTGGAATTACAGAGGTGGAGTACCACCGGATACTTT
CCTCTTGATATGAGGATATGGGCAAATGATAAACTAGGTGATTCAGTACT
TCTGACTGATGCTTTAAAAGACCACTTCCATAAAGCTTTACCCGGGCTGA
ACGATATGTCATCACAGTTGCGAGAAGCTGGAGGTACCCCTAATAACAAA
TTATGTAATTCCAGTTCTGTGCTGAGCAATAATACAAATGCTGCAGATGA
TCGTCGGCAAAGTGGGGGGAACTGGCATGGTAATATTGGAGCAGTAGATT
CTATAGGTAAAACTGATGTCGTTGGGAGTGATAGGTTGGCAACACAGTCT
TCTACTTGGACTGCACCTATTGTTAGCTATGACAAGGATATAACAGCTGG
AACAGCTTCACAGAACCAGGATTCATTCAAGGGCAGTAATAATCTCTGCT
ACAAACCGCTGGAAGTGCATAGTCAGTTATCATCATCCACATTTGCTTCG
AGAGATTATGCAACCCATCCACATGAATTGAATTCCAAGGTCAGATCATG
CAACTCTGATCCAGATCCTAAAATTTCGCTTTCACAAGGAACAACAGTAT
GTAACAACACAGGAGAAGTTCTTGGGAACCACTGTAGCAGCCAAGGTTTT
GTAGGCCAATCTTCTGAAAAAGGTTTGGGACATTCACCTGTGAGTTTTCT
ACCAAACAACTTGGATTTAAACTCTGTCTTTTGTCCAACCAAGTCCACTG
ATTCACCTGACCAAAGTGGGGAAATCATTGAAAACAAGGAGTCTGTTTCT
TCAAGTGTTAATGTTCACGACCCATACATTAGGGACCAGCCAAATTTTAC
ACTCATGATAAACAACAATGATCAGAAAAATTTGGCTGTTGAGAAAAAGC
AACCTGTGACTTTAAATATATCTGTTCAAGATACCGCTCCTAGCTGGAGC
AGCACCTCCAGTATAATGCTTAGTAGGTCACAGGCACCTGAAATTACTGA
TAAATGGGCTGGATATTCCTCTGCTCCAATGAAACATTCTGTTGAGTGGG
ACTCCAATCTCAACCCTGTCTCCTCTTCCCTGCCTGACCATGTTGGTACA
ACAACTCCACGAAGTTGTGAACCTACCCACTTCACCCTATTAAATCCTGC
ATCTAACTTCTCCAGTTGGCAGACACCTGGAAGTGAACCAATAGAGTTTA
GCACTTTGGCTGAAGAATCAGTGTCAGATTTACTGGCTGAAGTTGACGCA
ATGGAGTCTCAGTGTGGCATGGCTTCGCCTACATCAATGATGAATTATGG
CGATGATTTGATTAATTTGAACCTTGAGATTGCCTAACTAGTACACTATT
TGTATGTTTGTGGTATATTTCTTACAGTATCATTCATTAATATTATGGAG
TTACCCCTGCAGTCCTGGATCAGCAGAGGTCAGGCATAACCTGTATTAGT
TTACTGTCGGCCTATCTGACAGTAGGACTCCGGCCTTTTGACTTGAGTTG
GTGTTATTGTTGTAACAGCAGTTGAGAATCCTGCTGTGCTTGAATACCTG
CGAATTGCGATATTAATATTAAGTCACAGTGCATCGCTCATTATGTTTTT
GAA