| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017380173.1, is a part of gene, LOC108209330. |
| The genetic_marker, MK000037 ZDS1, is adjacent to gene, LOC108209330. |
| 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_017380173.1 | XM_017380173.1 | mRNA | DCARv2_Chr2:27154112..27160548 |
TTTGTTTCTTTCTCTCTGAAAATGGCCGCCGCGGCTTCGTCTTTGTATTT
TCCGGCCACTTTCACCGCTGATTCTCCCGCTTTCTCGTTCTCCGCTCGGC
GACCCTTTAAGCCCAAGAGGATGATGATGCTTGTTCGCTCCGATTTGGAT
CAAAATGTTTCCGACATGAGCTCCAATGGTATTTTCACCTTCCCTTTTAC
ATATTTTTGTTTTGCATTTGAGTTTTTCCGATGATTTTTAATTTTGTTTG
TGAAAATCAGGCTGCTTATATGTAATTTGAATGTTCTTTTGTGTTTTGAG
TATGGAGTGACTATGATATTGATAGGGCAAGATAATGCTTTTAAGTTATG
GACATGATTGCAGCAAGTAAATTTTAATTTAGTACCCCACGTTTGAGTTA
TATTACGGAAGCAAAATTATATACTCCATGTCATATATATTTACATCACA
GCTTAGATTAAAGCAATCCAAGTAACCGGTCCAAACAATAGTAGGTGTAT
CGGACTCGTAGAGCAGGAAGATGTAGTGTTTAAGGAGCGGAGACTGTTTC
CGTGGGGATCCTTGGACTGTGAAACATTGAAATTACAGCTTTGAATGCGA
AATTATGTTTTTTTTTTGTATATAAGAAGATGCTTTCATGTCCATTATGT
TAATTTTTCACAATCATTGCCCGTTGTACTTGATATGATCTATACTTTGA
CATCATTCTTAACTCTATGGTTTGCCTGTCAGCTCCGAAAGGGTTATTTC
CACCGGAACCTCAACTTTATCGAGGACCGAAGCTAAAAGTGGCTATTATA
GGAGCTGGGCTTGCGGGAATGTCTACTGCTGTTGAGCTTCTAGATCAGGG
CCACGAGGTCCATTATTCTTCTTCTTCACTACCCTTCCGATTTGTTAATG
GCCTCCAAAATTTTTGTGTATCCTGTCGGTTCTTGGCAACATGTGTCTGC
TTGTATATTACATACCAGTGCTGTTACAGTTAGTAACTGTCGCTGGCAAT
GAGTTCACTCATATGTTAAATCGTTGATACAGGTGGATATATATGAATCA
AGGCCTTTTATTGGTGGGAAAGTGGGTTCTTTCACTGATAAACGCGGAAA
TCATATAGAAATGGGTCTTCATGTATTCTTCGGTTGCTACAATAATCTTT
TCCGTCTCTTGAAAAAGGTGAAAAATTCTTTCTAGATTACAATAGTATAT
TAGTGATTGATATATCTGAGCTTAGGTATCATATCATAGGTTTATTAACT
CATATATCATATTAATAATTAAGAAAGTAGTTCCATGATCATAAATTCTG
TTGAGTGAAATGCAGAACATCTCTAAATATAGTAATTTGTTTCAATTTGC
ATGCTCCAATTTAAGCAGAATCATAAATTTTGGTAGGTAAAATGCTTTCC
TGTTTGTGTGCTCGTCCCGTCTGCGAACTTACAAAGTGCAGAATTTAACT
TGTCTATATGAAAAGTTTCAGCTCCTATAGACTACCAATATGTAAAATTA
AGAACTAAAAACGAGTATAGAACAACTAATTTTTTTTGAATGTTTGTGGA
TAACCTGTTTCGATGCTTAAACTATAGTGACTCGTCTATCAGGAAAACTA
TGGCTTGCATCATGTAGCATCAGTGTGTGATTAGAGTCTACAGGTTGTTG
ATCAACATGGAGCACAATGTTTGTTGGAATATTGTTAGGAGCAATTTATT
TATTCTTTAAGTTTTCGCAACTAAGATTTCTCTCACGATATTTATCAATC
AAAGTTACAATTTGTTTATTTTTCAATCAAATTTCTCATCACCTTCCTAA
ATTTACTTGCTAGGTTGGGGCTGATAAAAATCTTCTTGTGAAGGAGCATA
CTCACACTTTTGTAAACAAAGGGGGTGAAATTGGTGGTATAGTGTGGTCC
TGAAACTTTTAACTTCAATCTTGTGCATTGATTTGTACTAGAAAGAACAA
CTTCATCGTCCTACAAGATTGTGACAATATTATCTATTGATAGAATATCT
TCCATTGCAGAGCTTGATTTTCGTTTCCCAGTTGGAGCACCATTACACGG
AATAAATGCATTTCTGACTACCAATCAGCTCAAGGTAGAGCCTTTGACAA
TCCTACTATAGCGTTTCCTGCCTAATGAGTATATAAGATCCTGGTCATTG
ACAATCAGTTCATTAAACTTATCTATACGCCACCACAGTACTCTGAGATG
TGAATTTCAGATATCAGTAAGCTTCTGTATTTTTCTGTATAACTTTTTAT
TTGTTGATCTAAGTTATCTTTGAACTCAGATAAATATTAATTTTCTTGTG
CTATGATCATAACACTACTATTCTAAGGAAAATGACTGTAAGGATTGTAT
TGTGGCTATCCAATTTCCTGAAGAACCTTGCACATATATATGGAAGCATT
AATCTTGATGCCATCAGCCACTTATCAGTGTGCTCCTCTTTCATGTTCCT
GACATCAGTTTTACCCTTAGCACTCTCACTGTTTCAGTACACCCTGTTGT
TACTCTTTTCAAATGCCAATCTTTTAAATTTAGTGAATTCAGCATTTGGA
AAGAACACATTTTTTTTTTTTTTATAAACGTTATATGAGTATCACAGATC
TGTTATTTATAGCATTTTGTATTGTTCTTAGCTTGCCAAGGGAAGGCAGA
TTATGAAAATTATTGTAATGGACAATATACTTTTGCCCGTCCATATGCAC
TTGTTATCTTACTTGAAGCCTTGTATGAAGTATTTCTGACTTTTTACTTT
TCAGACTTATGATAAAGCAAGAAATGCTGTAGCCCTTGCCCTTAGTCCAG
TTGTGCGGGCACTTGTTGATCCAGATGGCGCAATGAAGGACATACGAAAT
CTGGATAACGTAAAAAAATATAGCTATCAATCTTGTTCCATTTACCACTT
CATCAGTTGTCTGTTTTTTGTTTTTTTTGGCTATCTCAATTATGTTCCTT
TTTACAGATAAGCTTTTCTGAATGGTTCTTGTCTAAAGGGGGAACGCGAA
AGAGTATTCAGAGAATGTGGGATCCTGTTGCTTATGCTCTCGGGTTTATT
GACTGTGATAACATGAGTGCTCGTTGTATGCTCACGATTTTCTCATTGTT
TGCCACTAAAACAGAAGCATCCCTTTTGCGCATGCTTAAAGGTTCTCCAG
ATACTTATTTAAGTGGGCCCATTCGAGACTACATTACACAGAAGGGGGGC
AGGTAAAATTGAATTCGGAATCTGGTAAAGACATCCTGCTATACTCAAAA
TTATGTAGTGGTTTATATCTTTATTTGGTACTAATATCTCTTCTTGAGCA
GGTTCCATCTCAGGTGGGGATGCCGAGAGATTCTTTATGAAAAATCTAGT
GATGGACAGACATACATTTCAGGCATTGCCATGTCCAAGGTAAAGAAAGT
GCTTCTTCTCATTTTACTGTTTATATTATCTTACCTGTTAATTTTGTTGA
AGGAACTAACAAAAATTCCTAATGTAAAATACAGTAGCGGCATGAGTAAA
ATACCAAGATAATTAAATAGATGCAATGAATACCCTATTTGTGTTGACAT
GTGAATCTGTGATATATTCACTGTTAGTTTACAGGGAAACAATAAATCCG
ATCTCTTAGTGACAGAACCTGGGACTTCTGTGATTGATGGATTGATCTAT
TTACTTCCAAATTTATTCACAGTTTATGACCAAAAAGCTTTAGTGTGAGG
AAATTTGAGAGAACAGATGAAAATAAGCGAGGGCACGCTGTATAGGGATG
TTTAAGGGTCAAATTCATTCAATGAGCAGACCATCTATAATCCAATTCAG
GTAAAATGTGTAATCCATGTAGTATCAGCTACCAATTCGAGAAAAGAAGA
ATGGCAATAATACAGGGAGCTATATGCTATAGACAGAAGTTACAAATTAA
CCCTTTTTTATCGTTACAATGTAAGATTTCTTAGATTCGACTACCAGTAT
ATTAAGATACAAATATAAGATACAAGCATCAGAAGTCCCACGTTGCATCA
AAAAACAACAAAGCATTGACTAAAGAAGTCTTATCTGAGTTAATTGATTC
TGTTGACAATAGTAACTATATTTTAAGATAATAAACTCAGAGAAAAGAAC
ATATCAGAAGTACTCGATTATGCTTGTCCGTTGTCCCATTCAGAAGATTG
ATGAAATCATGAAATTTTGTATATTACTCCCTTATCTACTCAATCAATGG
ACCTTTACTTTGTATTATCGTCAGTTGTCTAAGGTTCTGAAAACAGGTAT
TTATTGTGGTATATGATGTAAAAGATTTCAGTTTAAGCTGTTAAATTCAT
TGTGATGATGCGTTTGAATTTGTTTGATGATGTCAGAGCTATCCTTATCT
TTTTTTCAGGCAACTCAAAAGAAAATCGTAAAAGCAGATGCCTACGTCGC
AGGTTTGAGATATTACTACCTTGTAAACAAAGACTTTTAAACATGGGGAA
GGAGGGTAGAATTATATGAACTGATGAAAGTCATCTTGATTTCAGCATGC
GATGTCCCTGGAATCAAAAGATTATTACCCCCACAGTGGAGAGAGTCGGA
GTTCTTCGACAATATCTACAAACTAGTTGGTGTTCCTGTTGTCACAGTAC
AACTTAGATACAACGGCTGGGTTACAGAGATGCAGGATCTAGAAAAGTCA
AGGTGAGCCCTTCTCTTCGGAAACTCACTGTTTCTGGAAGTTGATGATCC
GTACCTAGAAATTTACCCTATTTGTTTTCCCCTTGTGTTGTTAGGCAACT
GAGGCAAGCAGCGGGATTGGATAATCTCCTTTATACCCCAGATGCAGATT
TCTCTTGTTTTGCTGACTTAGCACTTGCATCTCCAGAAGATTACTATCTT
GAGGGTCAAGGCTCGTTACTCCAGTATAATTTCCATTTTCAATCTAAACT
CTTTTTTTATGGCTAAAGTTGATTCAACTTTTTTAATATAAAGTCATTAG
TGAAGCAATCCCTTGCTCTGATCTTTATTACTAAAACATGTTGTTTCCTT
ATAGATGTGTGCTCACCCCCGGCGATCCCTACATGCCTTTACCAAATGAT
CAAATCATAGAGAGAGTTACCAAGCAGGTAATCTGTTGAGCTGTTTATCA
ATGTGAAATATATATAAAAAACAATTGAAAAATAGAGTAACTTTTGAACA
AATCCTGTGGCATTAAGATGAATTCCGTTTACGATTCTCAAACGGGCTTT
TATTAAAGATATAAAACCATCTGTTCAGAATATGCATGCCTGACAATTGA
CATTTGTATTGACCCATGCCCAGCATATATAATAGTAGTTAGCTAGGAAG
CATGCCCTGTATGGAGATACCGAAATTTGGCAAAATTAAAATATGGGGGT
GTTGGAGGATTTACCAGATTTTATAAAATTAGAAGTATATATTATACATG
TATTTTCAAGAGTAACGTTGGTATTTAAACTAAATAGTCAAATTAAAAAA
AAGTTAAGCATTACATAATACTTACTTGATTCGAAAACTGCTGCATTATA
AAATAGTTAAGTGATTAAGTAATCAACTAATTACACAATTATTTAAAAAG
AAGATTCGAGTTGCGCAATACGGCGGATGAGTGTCATTTTTCCTAGGTAG
TTAACTTAGCCTTGTCGAGTATATAGTTTCTCAAATCTGCATTTTCCTCC
AAATATTGAAAAATGCAAATTGTTTCTCAGGTTTTGACTTTGTTCCCATC
CTCTCAAGGCCTGGAAGTTACATGGTCATCAGTTGTGAAGATTGCGCAGT
CATTATACCGTGAGGGGCCTGGTAAAGATCCTTTTAGACCTGATCAGAAG
ACCCCTGTGGGAAACTTTTTCCTTGCTGGCTCATATACGAAGCAGGTGAC
ATCGTTATACTCCATATCTGAATTAGTTTATATGGGTGACTTTTGATTTA
AGTATAGGCATATCAGTCGAATCATCATAATAAGTCTTCATAATGAGTCT
TTGGCGGTTTTTCTATACGATCGTCCGTCATACTGAATGCATTTTACAAG
TGGTGCTTACTTATCCGTGTGAAGACATCATCTCTTCATCGAGGTTATGT
TAATTTATTTACTGAGATTTCCTTATGTTTAACAGGATTATATAGACAGT
ATGGAAGGTGCAACTCTTTCAGGTAGGCAAGCTTCTGCCTACATTTGTGA
TGCTGGAGAAGAATTGGCGACCTTGCGAAAAACAATTGCTTCAATCGACT
CCAACACACCTACAGAAGCTGAGTTAACCCTTGTCTGATGCACTACGTTA
TAGCTGTATTCGGACCACTAGAAGGTGATCATACACATGTATGTACTTTC
TTACAGTTGAATTGTGCCATGAGAACCTAATGGAACGTCAATGTTGTATT
CTAGGATGTCTTGGCGATCATTAGTTTTCTTTGGCTCAGTCTCGAGGTTA
TATATAAAGATAAAGGACATCTTGTTCCAAGGGATA
- 27160548
- .