| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017371515.1, is a part of gene, LOC108202908. |
| The genetic_marker, MK004211 K1655, is located in gene, LOC108202908. |
| 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_017371515.1 | XM_017371515.1 | mRNA | DCARv2_Chr9:22973005..22981901 |
AACATATGATTGATTATGTGTGCATCAAACAGTCAACAATCTATCTATAT
ATCTGGGCTAACACTCTTCAATCCTAGGGCTCCAGAGAAATCAAGATCCG
GGTTAACCCGATTCAGGGATTCAGGTCCGCCCCAGTTAATCATCTTGTTA
AAGTTTGCATCTTTAATTCTGTTTTTTTGTTGGGTTTGATTTGATTTGAC
AGACCCATAAGTATAATCATTAATCTGATCTATATCTAATTTGGGTTTTG
ATTCTTTTTGAAAATGAAGTGAAAATCTTGCATATTTGAATTATATGATT
GCGTTATGTATGTATGTATGTGTTTGTGTTAGGTAAAATTCTTATTTTGA
TTGTAAAGTTGTTAGGATCATCCAATTTTTTGATGTGCCTTGTTTTCTGG
AGAATTCGATATCTTGAAGTAGTAATTTTTTTGTGGAAAATTGTTTTCTG
GTACTTGGAAATGAGGGAATATCACGGTAGGATGTGTATTGAGTGTTTTT
ATCGAAATGAGTGCTTCTACTTATTTTATTCGGTATATAATACTTGTAGT
TGTGTGTGGATTAATGATTGAGGTCATTGTCAGTAGTTGCTGTTCATGTG
TGGTAATTGGGGTCAAGTTTTTCTTGCTCATTGTGAATTGGAAGTGTAAT
AGAGATCAACTTTTCCTAGTTGCATTTCCATAATAGAATTCAAATTAAGC
GCCGTTTACTCCCTTGCCTTGGGTTCATGGTATAAATATAGTATTTATAT
TAATTTGAAATATTTAATCCTAAAAGTGGTTGATATTCTCGAGTCCTCAT
TGATCAGTTTAGCGGCAATCTTGTAAATTTTTTAAATACTTGGTGGGAAA
TTAAGTAGTTTGACATACTAAACATATATCCAGTACGGTTGTGGGAAAAA
CTGTTTTTTAATAGACATACACAACAAATTGAAATCAGCAGTACTTGACT
AATGAAACCTTGTACTTGCTTGATTGCTACCGTGTGACGTTATTCTGTCT
AATTCAGAAGTAGTGCATATGAATTTTTCTGAGCAGATATTTTGTAGTCT
AAAAACATGTTTTGACATTTAGGTATATGCAATAGAATATGTAGTTAGTG
GTTGTAATATACAGTATCTTATAGTGGCTGATTATACTTGTTGCAGAATT
TTATCTAATTGGTGTTATATCTTTTTTTTTTTTTTTTACATTACTGAGGG
ATTTCAAACCGTGGGTTATGGACTGCCCCCACCCTTAACCGGGTAAATCC
GGACTCAACTATTAAGGACAAGCATTCCAAGCATCTCCCGAGGGAGTCGA
ACCTTGGTTTGCATGATAGCTGCCACTTGCTCTTACCAACTGAGCTAACC
CGTGGAGCTCTATGTTATACCTGATTGTAGAGAACATAATCACTAAATAT
TTCTCGATAGCCTTAGGATTATTATGCAACTCTTCTCTGATCCCCTCTCT
TGTCATGGGTGCTCTTGAAGGGCTTTTGACATGACAGGACTTGCAATGGT
CATTTTGTTGCTCGACTATATCTTGATAATTTGAAACTGCATTTTAATAG
ATCTGTTGCAAGTACAAGGCCATAGCTGGCACTAGATTATGGGCTTCACT
TTTCGACTTTACTTTATTGAAATTCTGTGCAAAACTATATGAATGTAGAA
GACCAAATATTATGTTTATGATGTATACTTGATAATATAGTTGTTTGAGC
CTTTGGATGACTTTATTCGGTCATGGTATGATAGAATTTATGATTGGCAT
CCTGTGCTTCACCAAAAATTACTGCCATATGGGACTTTTTTTTAATTAAG
TTTCTTATTTTCTTTGGTCTTCTTTAGGATGTATTGCAGTTTTCTGTTTC
CATGTAGAAGCCTATTATCTCACTAGTCTGGTGTTCTAAATATAATAAAA
TAATACTATAAAATGAAAGCACATGCTTGCTTGTAATTCCTTTCTAGTTT
CTTAATTTTCTTCTAATTACTTTTTGCTTTCATAAATATGTTGTCCAGGA
AAGTATTTGTAATTTAGAGGCATCAACGATATTCTAAGAATAAGATTTCA
TCCCTGGCTCCTCTGTGCTTTTTCCTGTTTGATATATGGCCTGAAGTGTA
CATTACATGGGAGGGGTAGAGGATGATCAACCACCCTTAAAACGCGTGAA
AGTAGCGGCTAAACATTTGAGAGGATTTACAAACGGATATTCTACTAAGG
AGTCTACGAGTTCATTGAGTTTGATGATGGCTCGGCCCCTGTCATCCCAA
GGGGACGATGAGATTCTTGGTACGAAAGGAATTGTCAAGAAAGTGGAGCT
GGTAAGAATTATAACTGAGGCACTGTATTCTCTTGGCTATGAGCGAACGG
GTGCACATCTAGAAGAAGAGTCCGGAATTCATTTACAGTCATCTGTAGTA
AAATTATTCATGCAGCACATTCTTGACGGGAATTGGGATAAAAGTATAAA
TACATTGCATAAATTTAGCCAACTAGATGAAACTACTATTAAGTCTGCAT
CCTTTATTATATTAGAGCAGAAATTTCTTGAACTTTTGGATGACGAAAAA
CTGATGGATGCTTTGAAAACATTGAGGACTGAGATTGCACCTCTTTGTAT
AAACAGTAATAGAATCCACAACCTTTCTGCTCGCATAGTATCCCCTTTCC
AGCGTGATCAGACAGAAATTGTAGCTAACACTGCCATGAAGGCAAAATCT
CGGTCCATGTTACTGGAGGAATTGCAACGAATATTTCCACCAACGGTAAT
TATTCCAGAACGAAGATTGGTCCATCTTGTTGAGCAGGCTCTTGAATTGC
AACGAGATGCTTGCATTTTCCACAATTCTCTAGTTGGAGACATGTCATTA
TACACTGATCATCAGTGTGGACGGGATCAAATTCCTTCTCATACTTTGCA
GGTAAAATCTTATTGATCAGCTTTCAGTTTAATAAAACAGGATTTTTGTA
AACTAAAATTCTGTGGTGACCGTTAAGAAGAAAATTTTCAATGAAAGAAA
GAACATAATCAAAGATAGAAAGTTATTTGAAAGTGGATGCCAGTCCTTCT
CTTGCAACTTATTCTGCTGGAGGCAAATTCAGACGCTTAGTTCATATAAA
CTAGCATCATCTATGTTTTGGATAAAATTTCAGTCTCCATCTGATCGCAG
TAGAGTTTTTTGAATTTATTTTTTTTTGACAAATATGGCTTTTAGCCTTA
CAAATGAGTATCTGTTCTATGAGTTTTTTGAATTTTAAATTTAAGAATTT
TATTGAAGTATTTAGTTCTCTTCTATCTTGTCAAAAGTGTTCCAGTCATA
AACTGAGCCAGTGTTTCGGCTGTCTTTTCATGTTTACTTGATACCAGGGG
GCATAGGGTGAAGTCTATTGCCCCTTTCATCAGTATTGCTTGTTCCCCCT
TGAACTAGCATGATTTGAGATTTTAATTTGTTCTTTGTGTGCTTAATGCC
AGTAATTTGCTACTCCCTCCGTCCCATAATTCTTGGCTTGTTTAACTTTT
TATGGTCAAATTGACCGAACTTTGACTACAAATTACATGTAATTCTCTTA
TAATTTTAAAAATATAAAATATGCATAATAAAGTACGTAAAGTATATTTT
TTAATGATATAATTTTTATGATTGTTCTTAATCATATTATATATGTAATT
TGTGGTCAAAGTTTGGTCAATTTGACCATCAAAAGTCAAACATGCCAAGA
ATTATGGGACGGAGGGAGTAAATAGCATGAGTTCCCTGGTCCTTGTCCTT
TCATGCTTGTGGGATTGGTATACTTGCTAGCAAGAAGGTAACCAGTAAAT
TGCTAAATAGCATGAGTTCACTAGTTGTGGTAAATTTCTGTTCGGACCCG
TGGCATATAGGGATGGGCATTAATCCCGACCCGCCCGATCCCGACCCGAT
CTCCGCACCGAATGGTGCGGGGATTTGGGGATTTTTTCGGGTACGGGTCG
GGGAACGGGGACGACTTTGAAAAAAATTCGGGGATCGGGCCGGCTTCGGT
TTTTTACATTCCCCCGGCCCGATCCCCGACCCGATTTTCCCCGATTGTTG
GCCCGATCCCCGACCTGATTATTATATTAGATTATATATCATATATAAAT
TTATTATAATTATTTATCAATATGTTTATGTACCTCTTTAGGTGCAATTA
TAGTCGCGGATTTTCACATCACCTATTTATTGATTTGAGAAAAAATTATC
TTGGTTGGAGTCGATCTGAGATCACCTCATTCAAAGGACAATTACTAAAC
CACCTTCACAAGCTTGAATATGTCGGTATGTGTTTTAATTAAATACAAAT
CATGCCACAATTTATAATAATTATTTTCATCTTCTGTGTTTATTAGTTTA
TTGATTATTGATATATTCAAAAACAAAAATTAAAAGGTTGTAAGTTCTAT
ATTAAAATTAAAATAAATACTCTAATTACTTGTCTTAAATTACTACTGCA
AAGTTACACGTGTTTCACTTTAAATACATATTATATAATATAATTAAATT
TATAAAAATAAATTTTAATATTTAATTCTATTAATGTAAGTCTTAAAATT
AAAAAGGTCATAATTAAATCATTGGATCTGTTTAAATTAAAATATTGAGA
TATTAATTAGACATAAATTAAAATTTAATCCTAATTAAGAATTCAAGTAT
TTAAATAGAAATTTTGGTTTAAATTAAAAATCCCCGATTTCCCGAGGGTA
TCCCCGAATCCCGATCGGGCCGGGATGGGGATCGAAAAATAATCCCCGAT
GGAGATCATGCCGGGGATGGGGATGGGGTTTGGATTCGGGGATCGAGGCC
GGTTATAGCAATCCCCGACCCGAAGTGACCCGATGCCCATCCCTAGTGGC
ATATGATTTTTGACTTCCTTATATTGAGTCGGGATAAGCTTACAAGTAAA
GAATTTCTTCTGTTCAAGTTTCTTTACATGGTTACAGAGTATAGAATGAT
TGTTTATACACTTATATTTTTCCCACGAGGTTTGTTTATTAGATTATGTA
ATAAATCATATTAATAATTTGGATGAGCTTGGATGTTAGATTTCATATAT
TAAGTTTAATTGGTGTTTAACTATATAAATGCAATTCTAACAAATCATTT
TCTATGAAAAATGAATTATTAAAATGTCAATGTTCTTTGTTCTTTTTGAA
GGTGTTTTTTTACGGAGTGCAACCACACACACACGCACATATAGAGTGTC
TTATATACATAAATACATACATACATACATATATATATATAGAGAGAGAG
TCTTATTCTACTACAAACTCCTTTATTCTACAAACTACAAACCCGTTCCC
AGTCGAACCCACCAAGCTGCCATCCCCCCTCCGCACAACATTTTTATAAT
ACACGTGCTATCCCCAACCCCTCTCTCGCACAACCTCACTCACCACAACC
ATGTCACCCCTTTTACTCTGTTTCCGTCCTGATCACAATTTTTTTTAAAA
ATCACTAAAGTTTGGAACACAAATCACTATTTATAAAGTGAATATCACTA
AATTTTATTGGTTTTTAGTTTGTATTTGATCACTAGTCTACACACACACA
CACAGGCAAGTGATCAAATACAAACCAACTATTAAATACAAACTAAAAAC
CATTTTTCCTACCACTATTTATACTGTACAAATCACTGTTTTTACACAAT
ATATAAACAATGATATTATTATTCAAAATTGAGAAAATCTACTTACCTAT
ACTAGTGATGATCGATAATAGATGATCAATTTCAATCTTAGAAAGGTTCT
TGACAGTAACACGCTGTAAGAAAAGTTGTATGATGGTGGTAAGTAGTTGC
TAGTTTTGGTAAGTTATGATGGCAAGTGTCCATGACTATTGGTGATGGTA
GACAATGGTGGCAAGTCATAAAAACGATTGGTAATGGTGATAAAAGGTCC
ATTATTACGGTTCGGGTGAAGATGATGGTCATATACGTTGTATATACATG
TATGTATATATTTATATTTAAGAGATATGTTATATACAAAATAGTGATAT
GTGATGTACAAAATAGTGATCATTGCAGTTAAAAATAGTGATTAAAATTT
GGGTTTTTAGTTTGTAGGCTAATTTGGTTTGTATTAGAGTAGGACTCTCT
CTCTCTCTATATATATATATTAAATTCACCATTTGGGTGATATTTTGTTG
TAACCTTTTACTTACACTTTGATGATAAATAATATCAATCTCATCACATT
GTAATTCATGTTCCATGTTTAAGGATGTCACAAGTTTTTTTTTTAACTTA
ATTTATGTTTTTAGTGAAATTTTAGAGATACTCAGTTCTATAGAGCTCAG
TACTATAAGTCTGTTCCTTTCTTGCTTCCAGTTACGGTGACTAAATGTTG
TAGAATTAAAATTTTGCAGATTCTACAAGAACACTCCGATGAAGTTTGGT
TCTTGCAATTTTCACACAATGGAAAATACTTGGCTTCAGCATCGGGTGAT
CACATAGTAATCATTTGGGAGGTACTATGTTACACTAATATATTAGACAC
TATATGTTCTACTCAAGTTTGTATACTTGTGCTTGTCAGTAGTAGATTAC
TTTTTAGAAACTAAATTTGTGATTAGTACCACTAAAATTTATCACAAATT
TATGTTGTTCATACCCGCAAGGAAGAATTTTAGTATTCGTGCATTCGTGC
TTGATGGTGCTTTCCTTAATTGCCTGTAGACTTATTCCATAGCCAAACAA
TAAATACTCAATACAATAACAGCTAAGCACTAATTGCCAAACAGGTTCTT
GGAGCTCAGTAACCCAATGGGTTTGAGTTCAATTATGATTAAGCCATTTA
ACCCTTAGTAGATAAGGGTTAGGAATACTGAGGTTCTTTTCTTAGATATT
TTTCTTAGCTTATTTACTATGACTCGCTCTGCACAGGTGAATTCGGATGG
TAGATTTACCTTAAAGAATAGGTTATCTGGTCATCAGAAATCTATCTTTC
ATGTATCGTGGAGTCCTGATGACCTTCAGCTTCTCACCTGTGGTGTCCAG
GAGACTGCTAGACGTTGGGATGTTTCTTCTGGTGAATGCCTTCATGTTTA
TGAAAAAAATGGTGTTAGTATAGTTTCTTGTGAATGGGCTCCGGGTGGTA
AAGAGATATACTTCGGTTTTACTGATAAAAGCATAAGCATGTGGGATTTG
GAAGGGAAGGAGGTGGAATGTTGGAAAGGTCAGCGAATTGTTAGCATCTC
AGATCTGGGAGTAACAAGTGATGGTAAAAAGATCATTACAATTTGCAAGA
ACTCTGTTATACTACTATTTGACAAAGAATTGAATGTCGAAAAATTTATT
GAGGAAGATGAGACTATAACTTCGTTTTCATTATCAAGTGACAATAAGTT
CCTCCTGGTTAGTCTTGTAAACAAAGAAATTCATCTCTGGAAAATTGAGG
GGCACACAAAGCTTGTTGGCAAATACAAAGGTCACAAACGTACTAGATAT
GTACTTAAAGCCTGCTTCGGTGGATTTGAACAATCATTTATTGCTTGTGG
AAGTGAGGATGCACAGGTATGACTCTTTCTACCATGTACTGTCATTGTAA
ACCTAGACTTATACTTGATTATAATGAATGACCCTTTAACTTATTAAAGT
TTGTGTGTGAATTCTGTTTTTTTATTATGCGTAAAACACCTGTGGGGCAA
GCCGAATTCCTTTTAATCTTAAAGAGCTCTATATTGGCTTGATTTAATCA
TAAATAATTCGTTTCTCCAAAAGTTGACAAGCTAGGCAAATACGTAAAGA
GATTCTTTCTTTTCCATCACTTTGGCATGTATAAAAAAAATATTGTGACA
TTTATTTTCTTGTAGTCCTTTCAAATCTATTATTTTTTATGTATCGTAAT
GGACACATTTTTAACTGTTTTGTTGCTTTTATGGTCTTTTGGCATCAAAG
AAGACTGTGATCTGCATTGGTGTTAGTTGGGTGGTTCTTTCAGGTTTAAT
TTGTATTCTCTCCATCATCAGTAGTCGTATACTTGGCTAGTTTCTTTAAT
TCTCTATCTGATTATACATATCATATAATGCATATTTTTTGCCCACATAT
CCACTTAACATTTTAGTTTGTAATTAATGTGACTCGCACATGGCTAGATG
ATTTTACTTTGTTTTTAATATTAAGTATATAAAGCTTTTAGTCTCTAATG
TTGTGTTTGGTTGGGATAAATGGAATGGAATGAGTGATAATAAAAGGAAA
TAATAGAGGGTAGAAGGAAGGACTTGATGAAAATGGAGTTGATGCAAATT
TTGTATGATGTGATTTCGATAGAAACTAAGTATGATAAGGAATGTAGCAT
TCCTTCACAACGTGGAGGGTTTGAGCTCTACTTAAGGATGATAGGAATGG
AATAGTAGGAGGAATGAAATTACTAAACATTCAGCTAAATTATAGTTCAA
ATTTCATTCCTTTCCCTCCATTTTTTATTCACAACAACCAAACACAACAT
AAATGTTACTGTATCATCTTTTACTTTATGTTATGGACCTTATGTTAATA
TGCTCTTGTGGTCTATTCAGGTATATATATGGCACCGGGGTTCAGGGAAG
CTTATTGAAACTTTACCTGGCCATTCTGGAGCTGTTAACAGTGTAAGCTG
GAATCCTACGAATCCTCACATGTTGGCATCAGCCAGTGACGATGGCACAA
TACGGATTTGGGGTTTGAATCAGGTTAAGATGAAACCCAAAGGGTGTCAA
AGCAACGGTGTTCATTATATCAATGGAGGTACTCCTGGCGAAAACAAGGG
TTCTTGAGTAACTAATGTTTTTTTAGCTGACCACCCCTTCCATGTAAATC
CTTTGCTTTCTGTTCTAGTTGACGTTTATCACAAATGACAATCAAAAAAT
GTGAATTAAATCTGCCAATAAAATGTTGTATGTGTTTCAAGTTTGT