| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017363000.1, is a part of gene, LOC108195963. |
| The genetic_marker, MK004760 K2204, is located in gene, LOC108195963. |
| The genetic_marker, MK007858 TP30939, is located in gene, LOC108195963. |
| The mRNA, XM_017363001.1, is a part of gene, LOC108195963. |
| 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_017363000.1 | XM_017363000.1 | mRNA | DCARv2_Chr7:32026287..32034118 |
| XM_017363001.1 | XM_017363001.1 | mRNA | DCARv2_Chr7:32026287..32034118 |
ACAAACGCGATCATTAATCCACTCCCCGTTTCACTTTCCTTTTTCAGCAC
ATTTCAAACACTCTCTTTCTAGAGAGAGAAACACTCGCCGCGCTTCTAGA
GAGAGAAACACTCGCCGCGCTTCTAGAGAGAGAAACACTCGCCGCGCTTC
TAGAGAGAGAAACACTGCAAACTCACCCTAACCTAGCCCCCATGGAAACT
ATCTCACCTCCACTTCACAAAAAAAGCTACCGCTCCGGCAATGTCGCCGC
CGGGAAGACGCCGTACGACGACGTTTTCGCGGCTCGGCCGAAGGTCAAAG
TTCCGACTCTCTCTCCTCGCGACGAGGACTACTCCGAGATTTTCGAGGTG
TTTCACGCTTCCCGAGGCTCTTCTATTCCTGTGCTTGATCTTCCTGCTGT
TGGTGAAGATGAGGATCCTGATGTTTACTTTGATGTTCGGAGCTCAGGGT
TTGACTACTCCGAAGTTTTCGGGAGCTCTAACGGTTTCGATTTCGCGCTG
TACGAGCAGCTGTTTCAGCAATCCAAAGCTGATAATGATTCGTCTAATGA
AGTTTGGTATGCTAACTCTACTAATCTATCTTCTTAATTTTTTAAATATT
TTTAATATTTTTTTGATAATTTATTTGTTGCTGAGCTACGATTGCTACTC
CATTGTGCTTTCTTATGTTGCCAAAACTTGTAGTAGTTGCAGACCTTTAA
TAGGTCGTTTTAGGTGTGTGTATGTCAATTTAAATTATTTTTGTGCAGGA
TGAAATTGAAATCAACCGTTAACTCTACATTGCGGTTTAAATGAGGTTGA
GTTTCTAGATTAGTTTCTTTATCAGTTGTAGTATAATGAGCTTAATTTAA
TGCTATGTACATTTTTTTAGGCCATATGGTTTAGTTTGGCCTATGTTCTT
ATGTTGCTAATAATGGATAAAAGTCAACCTAAAAAGTAAGAATACGTAAA
CTGAAGAATTATCTCTATTGATACGGAACTTGTTATGGCAACCAAGGTTT
TATATCCAATGAGTGGCCAGGTTTTTTATATAGGTCACACATGTAACAGC
TAACAAGACATACATTAAGTTTTCCTGAAGCTTTGTAAAAAATTTGTTGT
TGCTCAACTGCAAAAGCTATTACGTTGAGCTTTTAAATGTTGCAAAATTT
GTGGTATTTTTTTAACATATTATTATTTTCAGACAAAATAAATTTTTCGC
TAAACTTCAATAGGTATCTAACTATTTTACAGGGGTGTGTATGTCGAGTT
TTTTTCTGCAGGACGAGACTTGAAATTAACTGTTAACTTTACATCGCGGT
TTAAATGAGACCGAGCTTCTAAATTAGTTTCTTTATCAGTTGTAATAATA
TAATAAACTTATTGTAAGGCTACGTATTGACTTGCATTTTTTGTGTGATT
CTGAACTTCTTTAAGAATATGGTTTACTTAGGCAAATTTGGCATGAGTTT
TGGCCTAGTTTGGCCTATGTTGTTATGTCTAATAATGGATAAAAGTCTAT
GTAAAAAGTAGAAGTACATAGACTGAAGAATTATTTCTGTAAACTCACTT
ACTGCTTATTATAACAACCTAGGTTTTATATCCAGTAAGTTGTCGGCTTA
TTTGCATAGGGCAGACAAATAACAAGCTATATACATTAACTTCTACTGAA
CGACGTTACAAAATATTTTTGATTGCCATATACAGGGTTAGTAACAAATT
CACCGAATCATTTTATTTGAGTTTTAGTGGTTGGCCATCACATATTTCTT
GCCGACCCTGTCGATTTTAAGCTAATCCTAATGGTGGTATTGTCGAAAAA
GAGGAAGGCTAACTGTGAATCTCATTCCTTTTTTCTCATCATCAGGACTC
CAGCTCAAAGTGAATCTCTCTCAGATGAATCAGATCCTTCTGGTTGCTCT
GAAAAGAATCAAAGCTTGTCAAGTGGAGATATACACCAGTCATATGATGA
TACAAAGCAGTTCAACATATCATATCACAAGGCCAATCCAAAAGGCAAGG
ATAATATATTAGATGCGATGACACATGTTACTCAGTTAGATGCTATTCCT
GGATATAGCTTCATTATCAGTGACACCTCACCGTCGAAACATGTAGAAGT
TGAAAGTTTACCCGTGCAGATTGAGAGGAACACAGATTGTGGTGGAGCAG
TTACAGAAGGAAAACGACTTAGGAAAACAGTATCACAACCCCCGATCAGT
GATATTGGTTTACAAGGTTGTAAAACCGAAGCCAGTGTTTTGGCTCACAA
TGACAAATCCAGGTCTCCAGGGAAGGCATTTATATCTGTGTCTGATGTAA
ACCTCAGGACTCGACCTTCTCATTTGCCACCCCCCTCAAGACCACCACCC
TTGTTTGCTGACAGAGCCGAGAACTCCAGTAGACTAAATTCGAAATTCAA
AGCTTCCAAAAGTTATGTATTTGAAAGGACAAATGCTGGCGATTCACAAC
CTTATTTTGACGTGGAAATAGATGCAAGTTCGTCAGCTGCAGCATCTGCT
GCGGCTGTAAAAGATGCAGTGGAGAGAGCTCAGGAGCAACTAAGTAATGC
GAAAGAAATGATGGAGAGGAAGAAGGATGGTCTCGAAAACCGTACAAAGT
CACATTTCAAGAAGGATATAGGTCAGAGGGGTGAAAAGAACATCAAATTT
GATATGTTGAAAAGTTCTAAAGGTGACATATTTTCTCCTAAATATGCAAG
AGAAGGAAGTGAAATTAAAACTTTTGCTGAAGAAAATGAAAAAAAGGCGA
GGAACATGATCCATGTTGCCTCAAGTGCAACAGAAGGAAAAGAAGATATA
CACAGTAAACAGGGGAAAGAACATATGCAGTCTCAAGTACCACATGAAAC
TGAAGGAACTGTTGCATGGAGAGAAGCAACTCAATTATATGAAGTGGTCG
AAGAAAAGAAAATTAGTGAGGCATGTAGATCAGCAGATCATTCAACGTCT
AGTGACTCTGGAGTTGGTGAAACAGGTATTGCCACTGCTGTTGAGCTACA
AGAATGTCAAATGCAAACAAAAGCAACCTCGGCGGACCATGAATGTCAAG
GAAATGTGGAGAAATTTGAAGTGTTCAAGGGTGGCCATGAACAGGTAAAA
ATTAAAGCAGCCCAAGGATCAATTTGGCAGGAAGAGCATCAGGAGAAATC
AAAATTGGCGCAGATGGGTGATGAATGTCAACATATGGACAAGGAAACCA
GAGGGGCTTTACAACCTGGAGAAACAAATGACAAAGCAAATGCGGTTGAT
AAATATGAGAATGATGATATCGGGACACAAGATCAGTTAGAAGAAAATGA
GGTGATTTTTATACAGAAAATTGTGGGGGCTAATGAAAGCTATGAAAAGG
TAATCGAAATTATGGAAGCTCCTGAACGGAAAGGTAGTGGAATGGAAAGA
ACTGCATCTTTCGACAGCATTGAAAATACAATAAAATTTAGCGCAGATGT
TAAACAAGAGCGAGGAAAATTCAATGAGGCCACAAGGCAGAGTGCCAAAG
ACAAGCTGGAAAAAGAAGTTTTTGAAAATCATGGAAATGAGAGTAAACAT
GTGAAGACTTATGAAATGGGACAGAATAAGGAAAAACAAGATGAAGTGGC
TGAGTGTAAGGGAAAAACAAATCAATTGGAAGAGGTTTTTGAGCAAGAAG
AGAGCAACAATAGACTAGGAGTTGATCTTAAATGGCAAGAATGCAAGAAA
GAACAGAACTTTGTCAGTGAAGCAGAAAAGATTGAGAAGGGTTCTAAAAT
TACTATTGAGCAGTGGCAGAATACAGAAAGAGAAGAGAAGGCTTCTGAAG
AAGCGGCAAGTGAGGAGCGGCCAAATGATTTGAGTGAACAAGATGAGACT
GAGAAGAGACTCAAAGAGGCCTGGGAGAAGAAAGAAAAATGGAAAAGATC
ACGCGAGGCTCGTGAAAGTGAGAAGAGGGTAGAATTGTTGTTTAAGGAGG
ATGAGATAATGGATAGATCAAGTGAAGCCAATGTGTGGATCAAAGAAGGA
AAAGGCGAAGGATTTATTGAACACGACATTGTTCAGGAGCAACTTATGAG
GGTAGTAAGCGATGGGATACTGAATTTGAACCAAGGAAACTATACTACAA
TGGAGGAACCCAAGATATTTGATGGTGGAAGCGGGCATATTCACGAGCCT
TCTGTGCCCGTGGAAAATGAAAGCTTAGAAATGGAGCACAAAACTCATGA
AAGGGAAGTTGAAGTTAATAATGAGCCCCAAGAAGCAAATGTTAACTCTA
ACCTGGATCAAAATGGCTTGCAATATGAAGGAATTAATGACAAAAATAAA
GACGAGCCACTTTGTCAAATTGGCATCACGGATATGTATAATGAAGATGG
CATTGATCAAACAACAGGAATACACATTAAGAAAACTAGTGGAACTAATG
AAATGGCTTCTGATATTGAGAATGCAAACATTTCAACGCATACACGGAGA
GAGGCAAGGAGGAACTTCAAAGGTATCCAACCCGACCAACACGCTTTTAA
CCAGGCAGAAAATGAGGATAAATTCACGGCACCTCGAGTGGTGAAGAAGT
CCGTCGAAAATGAAAGAAAACCGGGTAATGTTCTGCCAGCTAAAAAGTTT
ACTAGCCAAAATCCAGAAGTAGAAGAGACTAATTTTCAAAAGAAGACTAG
ATTAGAAGAAAGGGAAAAAGAAAGATTAGAAAAGGAAAGAGATCTGGAAA
ATGATTTCTTAAGAAAGCTAGAAGAAGAGAAAGAGAGAGAAAGAGAAAGA
GAAAAGGATCGCATGGGTGTTGATACAGCTACTCGTGAAGCTCGTGAAAG
GGCATTCGCTGATACTAGGGAAAGGGCAGAAAGGGCAGCAGTTGAAAGAG
CAACTGCTGAAGTTCGACAAAGAGCACTGGCAGAAGCCCGGGAAAGATTA
GAGAAGGCATCTGCAGAGGCTAGGGAGAGGCTAATTGCTGATAAGGCTTC
AGATGCCAGGCTCAAGGCTGAGCGTGCTGCAGTAGAAAGAGCAACTGCTG
AGGCTCGAGAACGTGCTATTGAAAAAGCAAAGGCTGAGAAGGCTTCTTAT
GAGTCACGTGACCGAGTAGAGAGACCTGTGACTGACAAATTTTCTGCTTA
TTCCAGGAATGGTGGATTCAGACAGTGCTCTTCATCCAATGTGAGTTAAT
TTTATCTCTGTGGTGTACATGCCTGACAGCTTACTAAATATGATTCAAAC
ATGTCAGGATCTTCAGAACCTGCAACATCAGGGGATGGGGCCTTCCCGTG
ATTTGAAACATTCGCACTCTTCGGTTTCTGGTGGTGGGTGATATATAAAC
CTCTAATTTTGCTGTTTGGCAGATTTACTTTTGTTAGTGCTACTTTTTAG
CAGTTTAACAATATTGAGGTTGCTAGAAATAATGATATGGTTTGCTGATG
AAATTTTGCAGGACTTGAAGGTGAATCAGCTCAGAGGTGTAAAGCTCGAT
TAGAGAGATATCAGAGAACAGCTGAGCGTGCTGTATGTGCTTGTAATTAC
TAGTTTTTTTTTTCTTTTTGCTTACCTTAAAGTGGCAGCCATAAACTCAA
AGTAATTGACGACATATTAGGCAAAAGCTCTGGCGGAGAAGAATATGCGT
GATCTTATAGCTCATAGAGAGCAAATAGAGAGAAGTGTAAGTATTTTTTA
CTTGCATACTTGAGTTTCTGCCGCGTATATATTTCTGACTCTTTCTTTTT
CATTCTTTTTGGTCATGCAGAGACTCGCAGAATCCCTGGATGCTGATGTT
AAACGATGGTCAAGTGGGAAAGAAGGGAATTTGCGTGCTTTGCTTTCAAC
ATTACAATATGTATGGTCAATTATCCCTGTACTCGTGATTAAATGTGGTT
TCCTTCATTAGCTATTCATTCTCCTAACTTAAATTTATAGGAATGAGTGT
AAAAATAGTGCTCTGACAATGTCGTAGTGAATCCTAAAATCACTTGGACA
CTCCCTTCATTCCAAACGTCACTCTTATATTATGATTCTCATAAGTTATA
TTTTATTATATAATATTACAAGCACTCCTTTCTCTTTCTATTGTATGTTG
AACTTTTAGTGGTACAAAGTACTTCTAATAATAATAAAATATCAAATAAG
GAATGAGTATATGGAACTTGTTGAAGATGAAACTACCTATCTATATCCTA
AATTACCAGGATCTAATTTTCTATATTATCTTTAAGTTATGAGTTGGGAT
ACCTTTGGAGATGCTCTAATTATTCGAGCACATGATTGAGTTGATAAATT
ATGTGTTTTCTGCTAATAAATATAAATATACTCTGGTAGAAGAACCTTTG
TATGACTGCTTATTGTCTTTTGTGTATTAATGGCATCCAATGTGACAACT
GTTATTGGCGGGATATTCATATAGATAGACTATTAAGAGGCTGGCAAAAG
CGAGACTTAACTTACCAAGTCCTCACAGAGCTACATAGTGCAGTACTTCT
CTCCAGGGCCTCCACTCGTTCCTAGGTTCTTGTTGAGGATTTTTACTTTA
CAAGTCAAACTAAGTGGCATATCACGGTGTATGTAGTATGTTTATAAGTT
AATGAATGAGTATAGCACTACATGCTGTTCATAAGGTGTAAGCTTGTTAA
ATGATAATTCTTGAGAGAAGTAGTGCAGGGCCCAGTGAGCACTTTGCTTG
TGATGGTAAATTGACATTCCGCATAGATCACAACTTAGAGGCTGATGTTT
AGTATGATATTAAAAGCAAGTTGTTCAGACTATAGTTGATATCAAATAAT
CCCATGCTACTGTAATAAATGGAATGTTTTGTAGAGTCTGACAATATCAA
TTTTTTCCTCTTTTCACCATGAAAAGTCTGATTAGTTACAGAATCTTCAT
GGAAAAGCACTCACTCGCAACCTGTAGAAAACTGGAGTATCTGTTTATGT
ACTTTCAATTTTACTTTTGAGTCTGAAGGCTAGAGTAATTTTATTTTTTG
CTAGTACAGAAAGATGTCAAGTGAAAATAACATAATACAAATTACTCAAG
TGAAAGCTTAACATGGAATATCTAGTCATGCTTTCCCATTAAAACAAATA
TTAACAATTTCTTACTGGCAGATCTTGGGGCCTAATAGCGGCTGGCAGCC
CATACCACTAACTGATGTGATAACTGCTGCTGCTGTAAAGAAAGCTTACA
GAAAAGCCACTCTTTGTGTTCACCCTGACAAATTACAGCAACGGGGTGCT
AGTATACATCAAAAGTACATATGTGAAAAGGTTTTTGATCTTCTCAAGGT
ACAGATTACTTGTCTTCTGTCCCGTTCTCATGTTTTCATTTGCTATGCTA
ATATACCAATTTTTTTCAACTACTTGGTTAGTGAGCTAAATTGGTCACTG
AAATTTAAGAAATGTTGTTGCTCAACAAATTCCAAAATCGAGCTTGTAGT
GGACCTTAACATTCTTTATCTTTCCACACCATCAGTTACATTATCACCTA
ATAGACAGATTATATATTGCTTCGGTGTCATTTCTTTATTTGGTTTGAGA
ATATTACTGACTCGTGTCCTTTTGTACTCTGCAGGAAGCATGGAACAAGT
TCAACTCAGAGGAGAGATAGACAGGCTTTCATCTGCGTGTACACAGTAGC
ACTTAAGTTACCCCACATTATGTAATTATGCCGTCAGGTAGCAAATCTTT
GTTTCTTATAGGTTGCTTATCTAGTTTCTATGTAAACTTTAAGTTTCCAA
GGAACAGGGAACAGGATAGATTAGTAAACGAAAAAGATATCCTCTTTTCT
TGAACCTGTTAGTCGGATAATGATCCTCTTAATTTGTTGGACTTTGTTCC
AGTGGACATATGGAGAACTTGGTGACTAAAA