| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017363876.1, is a part of gene, LOC108196552. |
| The genetic_marker, MK004295 K1739, is located in gene, LOC108196552. |
| The genetic_marker, MK007830 TP94137, is located in gene, LOC108196552. |
| The mRNA, XM_017363877.1, is a part of gene, LOC108196552. |
| 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_017363876.1 | XM_017363876.1 | mRNA | DCARv2_Chr7:17103684..17111975 |
| XM_017363877.1 | XM_017363877.1 | mRNA | DCARv2_Chr7:17105876..17111975 |
TTGCATTATTCTTCCATTTTTGACTTTCCCCACTGGAGAGTGTATCATTA
CCAAATTGTCGTTAACATTACCTCCAGTCCTCCGCAATACGCCCATATGA
AGTCCATATGAAGACAGTGAATTATTATATTTTCCCTCCAAATAGAAAAT
CATCATGATCCGTACAGTTTCCCCCAATCAATAAGCCCTAGACCCACACA
TTCTTTCCAGTGTGATATTTGAGTTGTAAATACTACCTCTTTTGTCTAGT
TTTGCTGCTAATTAGGTTACTATGTGTTCACGAGGCGACGATGAAGATGA
CGATGATGAGATCCAAGAGAACAAGAAAAATTTGAATCCTCAAATTGATA
ATGCGGAGACTGAATTTATGGATACTCAACCTTCTCCGTTACTGCTTCAA
GGTAAATTATTTAGTTAATTTATCGAGATTAAATTATCTATTATGCTGGG
ATAGATAAATTGTATGGGAAAATAGATTTTTTTGCCACCCAACTTATTAT
TTGTTTAGAAACATACCACTGAACAATAATTTTTTTCTTTTTTGCCACTA
ATGTTAGGTTCGGATTTTTTTTTGTCACTAACATTAGGTTCGGATTTGAT
TATTAACACTATGTTATTCTTCTTAGAGTTAATTGCATTTGGCACCCCTT
TGATTTTAGCATGTTGCACATTGCACCTAATAGTTTTGGAATAAACACTA
TGCAGCCCATTACTTTTAACCCGTAGACACTTTGCACCCTTTCCGTTATA
TTCTGCCGTTACCGTTAACTTTTGAATGGGCATTTTGGGAAATTTTTTTA
TATTTAATTAAAATCAAACCTTTATTTAAATTTTCCGACTATCCAAACGA
TATTTTTCGGAAATCTATTTTTGGGTAGTCTGCAATATAATAGTGATCTG
TGTCTATATCTTTATATGTGGTACTCCATATGTGTCCTAGGTAGTTTATC
TTAGAGGACGAGATTACAAAATTTTTTACTCAGAAAGGAAATCTCAAAAT
TAACTTATGGACTTAAATTTATAAAAAGTGGGAACCTTAAAATACGTGAT
AAGTAGTGGTAAAGAACTATAAAGTCAAGTGATACTATATATTTGTGGAG
TCTTAAAATAATTCATAAAACTAAACTTTTTAGGTTCTTAAAATGCCTGT
TAAACTCTCGTACTTCAAGGTAAACTAGCTAAGGGACATATAGATAACTG
TATATAATGTTATAGACACATATCATATTACCATAATATTGCAGACTACC
ACTATGTTTTTATAATACTAAAAAAATAACATATTGTTAATAATCAAATC
AAAACATAACGTTAGTGATAAAAAAGAAATCCAACTTTTTTTAAGGAAAA
AAAACCAACATTAAATTTTATTCAGAAAAAATAAAATAAAATAATTTTTG
AAATTTTTTGGAGTCTCAAAATGCGTGTCCAACTCTCGTCGTCCAAGGTA
AACTACCTAGGACACTACATAAAGATATAGACACATATCATATCGCCATT
ATATTGCAGACTAACACTATATTTTAATAATAATTAAAAAATAACATAGT
GTTAATAATCAAATCCGAACCTAACGTTAGTGACAAAAAAAAGTCTGAAC
CTAACATTAGTGACAAAAAAGAAAAAAATTATAGTTCAGTGGTAGGTTTC
TAAACAAATAATAAGTTGGGTGGGAAAAAAATCTATTTTCCCTAAATTGT
ATTGATTTGTTAACATTCTACTTTTGGTAAGATGAAGAATTGGTGCACAC
AGTTATGTTAAACGAATATTTTGTTATCAAATTTTGCATAATACCACCAG
CAATTGAAAAAAAAAGTTATTATGTTCGTCGTTCGGTTCTGACTAGTATA
TGTTGAAATATGATGCTGAGGAAGTATGAAATCGTTATTAGACCAAGTAG
AAGAGTGATGATACGTTATGGTTTTGTGTCAGGATATGAATCGTATGATG
ATGCGGTTACTTTAGAAGATGCTGAGACTCAAGGGGTATGCCTTGCTGGT
GAGACTCAAGCATTGTGTTATGATGGTGAAACTGAAGCAGTTGATGATGT
GGATTGTGCAGAAGATTTGTGCACCCAATTGTTTGATGACCATGATACAG
AAGTCGTGGTTGATGTTGACGATGAAGGAGCCAAGAGAAACGGAGTTTTA
GATGACACTGAGGCGTTGTCTGATGTTGACTGTGTGGAAAGAGTTGACAA
TCATACAGTGGTTCAAGACATAATGCTGCAAACCTGTCTGCAGAAACAGG
ATGATGGTGATTTTAAAGAGGTTGAGAACACTGAAGAGTGTGATACAGGT
CCAAAGACTTGTGAATTTAATTTTTTTTAAAAAAAATTATATATTAAGCG
CTCGAGTTTAATTTTGACATCAGTATTATGTATAAACCATAAAGTATAAC
TAGAAAACATGCATGTTTGATGTTGGCGAGAAAACTAAGTATCATTCCTG
TGATAACAAAATGAGCAATACTATCTATTGGAATGAAAGGCCAATAGTCT
TTTATTATCGTGGATGTGTATTGTTCATTATTTTACCTTTAACAATATCA
TGTACAAATTTGTAAAAATATTAACATCTTGGTTTTATGGCAGCAAATAA
CCAATTAAGTGGATGATTTTGGAGGATAGGTAAGTGGATGATTTTGGAGG
ATAGGTATAATCTTCACAAGTGTTTCACAATAGATGTGGTTTTTTTGTGT
GCCAACATACGCTTTATTTCTTCTATTAGTTTCAAGTTTCAAGAATTTCC
TGTACATACTTCCATCCCACAAGCTGCCTTCCTTACCTTTGTTAGCACGT
CGTGTCTTTTTAAAAAAAATCTAAAGCCAAACTCACATTTATGTTTAGTT
TTTGCCTGAATATGGTATGTATAAGAAGCTATAAACTCAGTCTAATAGTG
AAATTTTCCGTCATCATGCAGCTCCAGTCCTCGAAGGATTTACATCACTA
CGTGTAGCATCTATTAGGTCTTCTGGTTTGGCTGCTCGCAACATGTCTTT
GAGACGAACTAATAACACTTCATATTACAGTATGAGTAGCAGTCAACATG
AAGTAGAGAGTAGCGGGCCAAGCGTTATTGACAGTTCATTAAAAGTTTTG
GGGCTAATTGATCAAAGGCATAGTCTGGAGGAGCTTGATGATAAAATAAA
AGGATCTAGTAGTGAAAACAAGTGCAGGGTTGGCAAGTCAGCAGTTAGGA
AATTACTATATGAAGATATGTCTCATGAGGAAGGGCTTGATATAAATACT
AATAACACTGATAAAGAAGAAAACTTCCCCCCAGTCTGCAATTCTGATAT
GGAGTTGGCAGGCCTGAGCTATGTAGATTCTCAAGAGCCCGGAGAGGCTT
CACAAACTATTGCTCTTGACTTTGTGGACCAATTTCTGAAAGTTAATGTT
ACAGAATTAGATCAAGAAGCTGAAATTATACGGTCAACTGGGGGGAAATT
AAAGCCTCTCCCAGGTGCTAGAGGAACCCAATTTCTGGCTAAACGTGCTA
ATCGCATTGGTTCAGCATCTGGTGGGACATTTGACTGGGATGATTATCAA
GAGGATGGAGGGGGTCAGTTTTTAAGAAAAGAGAAAGGAGCATTTTCAAA
TGATGGACGCAGAGCTCATCAATCCCTTCCCAAATCTCAGGATCTAAAGC
ATCTGAATCCAAATAATTGTTGGTCAGTCAAAGAAAACGGTGAGAAGGGA
GAGCAACATGACCTATGTAACAGTGTAGCTGGCTTATTTGACTCCGATTC
AAAGTTACTTTTGCACAAAACAAAAAAGATTGATGAATCAATGAAGGTGG
CAGGAAAGTTCATTGGACAAAATCTAATTAAAAAGTTGAATGATGCCAGA
GATGGAATGGTTGAAACAGGTACTCAAAAAGATAATCCAGACATGCTGGA
CATAGGAGTTGATACTCAACTGGCTGCTGACGCAATGGAAGCCTTGTGCA
ATGGGGTAGGTTTGAATGACGAAGAAAACAATGTTACTAATCAGGGTGCT
GAGATCCATTTTCTTAGTAATGAAAAAGGAAATTTTTTAAGAACATTAGT
GTCAGATAGAGATTTTGTTCAAAAAAGAGCATCACGCTCTCCAGGATCTG
CACTCACTACAAGGCAAACGAATCAAACTAAAAGGTATGGTACTGGATTG
ACTAAAGGGTTCTCCATTTTATCAGAACAGCAGTCCAGAAAAGCTAGGAA
GCAGTGTGACGAGACTGAAGATATGTGCAACTTACACTGTGAACTTGTTG
AGAAAAGTATGAATGAAAAAGAGTTGGAAAGAGGTGTTATTGGTGAAAAT
GAAAGATGTGTTGTTTCTGCACCAAGTGGTAAGAAAACAGTGAAAAAAGG
GTGTGTGCAGGAGCAGCTTAATACCTATTTACCCATTGCTTGTCGTACTA
GGCAGAAGGCATCAACTCAAACACAGAGGGATACCAAAACATCCACCATC
TTAGTAAAGGGGATAGATAATTTAAGTGCCCCTATTGCTCCTAAAAGGAA
AAGGAGCAGGGCTGCAATAAACACACTTGCCCGAAAAAACTGTACTGAAT
TTAAATTCATCCAACCTGCACACCCTAAGAAAACAAAAGTAACACATACT
GAGCCATCAGATTTAAAGATATGTGGTACTGGTACAATCCAAAAGGGTAA
TGTTCATCCAAAGCCGTCCAAGGAGGAGATAAACGGGATGTCAAATTCAA
AAATAAAGTTCACACAGATGAAATCAGGCATAAAGAGGAAAATACTGGCA
TCTGGGCAGTCGCAAAAAGAATTGGTGGAGGATACTACTGTGGACCATAG
TCCTAACCACCACAGTGCCATTGGAACATCAGAAGATTCAGCTGTGATTA
AGGCTCAGACAGCTGAATATACTATTGGAAAGAGTCGCTCAGCTATTACT
GCTGCTGAGGGAGCAAAATTGAATCCATGGTCTAAAGAATCACTAAAGGA
CATATGTACACCAAAATCTTCAGCTTATGTGACCCCTAATATATATACAA
AATCTGTAAACAAAGCCTCTCCAGTGGGTAAAGAATATCACAAACCGTCA
TTCAGGAAAAAGCCATTAAGTTCACCACTAAAGAAAGAAGATAGCAGAAT
AATTGAAGATGGGCCAGAATCTGCATATACATATAAAGAGTTGCGTAAGA
GGAGAGATATAACTAAAGTTCAAGTCTTGTTCAGTCAGCACTTGGATGGA
GATGTAATTAAGCAGCAGAAGAAGGTATATTTGTATTCTTTTCTCCTCAA
TTCGTGATTAAAGCATATTCAAATTTGAAAATTTATTCAATTGACTATCA
CAGGTTTTGTTCCGGTTGGGAGCTTCTGTAGCATCGTCAGTTTCAGATGC
TACACACTTCGTAGCTGATGAATTTGTGCGCACAAGGAATATGTTAGAAG
CTATTGCCTTTGGAAAACCAGTGGTGACACACTTTTGGCTAGAGAGCTGT
GGACAGGCTAGTTGTCTCATTGATGAGCGAAACTACATACTGAGAGATGC
TAAAAAGGAGAAAGAGATTGGCTTCAGTCTGCCAGTTTCACTGGCACGTG
CATGCCAACATCCACTTTTACAAGTATGAAGTATGATCTTAGTTTATCCC
ATTGTTTGATGGCGGTTATGGTTATTCTTTAGTAAACTACTATTTTTCAG
GGGTGTAGGGTCTTCATCACGCCCAACACAAAGCCTGGTAAAGATATATT
GGCAAGTTTAGTGAAGGCAGTTCATGGCGTGGTAAGTATTTTTCTAAGGA
TATCCCTGCAGTTATTAATCATTAGCACTAAACTATTGGACTCCCTGAAT
TTCTTTTATGTAATTTGCAAAATGTCAGAATTGTAATTATTGGCCATAAA
TTATCACTTGTTTTCATGAATGGCTTGGTAGTCAAACATGTAAACTGGGA
CTTTCTCTGCTCTTTTCTTCAATAACCTTGACATTAATTCACATGCATCT
TTGTATGTGTATACAAGTAACATATTACCCAAAGGTCAATCATAAAGCCT
AAAGATATATCCTAAATGTCAATTTTATTAAAGCCTAACAATCTAGTTTA
AAGGTGCTAACAAATTTTGCTAAAAATTTTCTACTTTATGTATGGAGCTG
ACTAGTAATAAATCATAATTACTTCAGTGAAAACCAACTTCAAACTTGTG
TTCATTGATGTTAGTGTTCTACCACCTAAGATTTTTGATAAGTTCGCTGG
TACGATTTGTAAACCATATTTCACTGGTTGCGGAGTAAAATTTGTATCCA
TTTGCTTCTTTCCTCCAACCGCTGGTTCCTTTACGAGTCTCATATAGTCA
TATTTTACATGCAAGTGTGAGAATATAAAAAGGAGCCTTTTACATTCTGC
AGATAGTGTATAGTACATAGACCCTGCATAACGAAGTCGTCAAAGTCCTG
GACTCCTGGTTACAGTTCAGCATAATGTGAAACTTCATTGCTGTTTTTTG
AAGTACACTTGTTGATATCAGAGCACTAAGTAATGGCTTTGGATATAATT
TCAAACTTGCATGACCTCAACTACTAAAATTCATGTCTCCTGGTGCATGG
TTAATACGTAAAACAAATGACCCAAGACCAGACGAATAAGATTTTGCGTT
CACGAGTCTTTTCCTCTTAGGCTTTGTTTGTAAATTGAAGAATATCGTCA
TACCTCAAGTAGATCAAACATTTTATGACTAGAAGTTGGAAGATTGGTAA
TGGATTCCATATATTTTCATTGTACTGAATGATGATACACCCAATTTCAA
GTTGCGTGGCGGATTCAGATACTTTTTGTTCATCTGGGTTTTTTAAGTCC
ACTGATATTTTTGTTCAGGCTGTTGATAGAATTGGTCGATCTGCAGCAAA
GGATGAAATGGTTTCAAGTGATTGGATCGTTCTTTCGTGTGAGGAAGATT
ATGCAGATTGTGTGCCCTTCCTTGAGAAAGGTTAGGACCTATAAATACAT
GAGATTAATCTAGTAATAAAGAACATTACTTTTATTTGTAATAGCAATAT
GTCACTCAATGTTTATATACAGGAGCATCAATTTACAGTTCCGAGCTACT
TCTAAATGGTATAGTTATTCAAAAGCTGGAACATAAAAGGTCCCTTTCTT
TTCCTTATATAAATTTTTTTATTCATGTTCCTGTTTCTTTGATATTAACT
CGGTCTTATGCCAAAGAAAAAAAAAAGTTGTTTCATAGGTTTCATGCGAT
CTGATATTTATGCTTGTGATTATTTTTACCAATAAAAATGAATTCTTATT
TTAGCAAGGAAATTTAGGAGCTGTTTGGTTTTGTTTTCCTGTTTTCTGGA
AACATTACCATGTTTTCTTTTTTTTATAAACTATTTTCTATTTATATTAT
CTGAAAACTATTTTTAAAAACAAGACGAATCACCACATTAGTTTTCTGAC
ATTGTTTTATGTTTTTAAAAACTGCAAAAAGTTTTTAAGTTATGAATGCA
AACATCTACTTAATTTTTATTGCCACCCTATAGAATTAGATGTAATTTCT
TATACATAAGCAATTAATTCTTGTATCCTGTTTGAAAAAGTTTGTTGCTA
AATGCTAAGTTGGACAATAAATATGTTCTTCGGTAATATTCACAAGTCTC
ATTTTTTACATGACAGGCATCAACTCTTTGCTGAGATAAGAAAAGATGGC
AATGAATTTAATCTGGTGGGTTAAAAGCAAATGATATTGTTTTTTCGGTT
TTTCTTGTGTGTGCCCATGGGCACATGCTAAGCACTAAAACCTATAAATT
TGGAGAGTTTTGATTGGTTTACCCTCCCTAATAATGGTGGACCCCCCTGC
AGTTACAACAACCACACCAATCAAAACTCTCCAAATTCATGGATTTTTGT
GCTTAGCATGTGCCCATGGGCACACACTAGACAAACCCTTGTTTTTTATC
CCACATATTTGTTTTTTTTTTCTTCCAATTCTTCATCCAGCTTTCTGCAC
CATTCTTGGCTCAAACATACACATAGGATACCTGTACGTTGCCTTGCCTT
GCTAGATTTTGGTTTCAGTTCTTAACCATGATTAGTCTTTTCAAAGCCTC
TAAATAGGTTATTTGTTTTCTCACAAATTACGCACCACCTTTATGGTGAA
ATAATTTCGTGCTTAAGCTATGCTTGCACACTTACTCTAGATACACACAT
ACCCTAACTTAGCTTTGTAATATAAATATATAGAAGTTATGATTTGTAAT
ATTTGTAGTTGTAGTAGTCGTTGCAGCAAATCCTAAGGTTTGATTTATAG
CACCCTTCAAGGTTTTATCAATAAACGATATATCTTGAAAA