| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017364150.1, is a part of gene, LOC108196731. |
| The genetic_marker, MK009737 7_28370561, is located in gene, LOC108196731. |
| 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_017364150.1 | XM_017364150.1 | mRNA | DCARv2_Chr7:28370144..28378934 |
CTAAAAGCTTTGGACCCTCAAGTGCAATAGGGCTTGAAAGCAAAAATTGT
TGCAAATTGCAAACGCTTCCGCAAGCAAAACCACGTAGAAGCACAATAGA
TTGCCAGGCAGGCACAAAGCTAGAGTCTTTAGCCCCTATATAAACCCTCC
ACCGAAACACACATTTGTTTATATCGCTTTCAAGAACACTTCTCTCTCTG
TCCAAACCTTGTATCTAAGTTCTTAATCTTAAATCCGACAAGGGTTTCTT
GGGGTTCGTGTCCAAATGGCTTCTTCTCCCACCCTTCCACCCCCTCCATC
CATCTCAGAAGAAGAGCTTGAAGAGGAGCTTACAGATGTTGGGAACAAGC
TGTTGAAACCCCCTTCTTCAACTGATGAACTCTTGAAGCTTCTTGATGTG
AGGCCCCTTTTTCTTGTTTTTCATCATAAAGATTTGATTTTTATGTGTGC
CCTTTTGGGATTAATTGATTTTGTTGGTCTGCTTGTTATTTGTTTCTCAT
TTCGTGATGAATTGATGTTGGTTTCTCTAATTGGGTTTGTTTCTTGTGAA
AAGTTTGTGATTTTTAGCATAAAGGTTTGATTTTTGTTTCTTTAGGTTTG
GATTGATTTGATTTTGCACATATATGATTTGTTTGTGAATAGATGTGGTG
GTGAATGTTGTTCAATTTTGGTACAAGTACTCTGAGGATTCGTTCATGTC
ATGGCGTGTTGATTGATTTGTCTAGTAATGCCGGGCTGGAGTGATAGAAT
GCTATGCTAACATGACTTTCTTTTTATAAAACCATGTTGTTACTATACAT
GTATGTGCGCGCGCACCCCCACTCACCGCAAACATGTACCATGTGATGTT
TAAGGGTTTATTTAGTCGGGCTTTTATGACGACTGTCTTGTGGTGCGATA
TGTTACCTTTGCAAACCTTAGGGTTTTATATGTTTAATGTACGGATAAGT
ATTTCCGCTGACCTAAAATGATGTCATAGCTTTCTGATTTTTGTTGAATA
TATGTTACAACTCATTGGCATATGGGTGCAGAAAGTGAATCGAATATCTG
GTAAATATTTAGTTGTTCAAGTATCGGTTGCTTCCTATTTGTTGGGATAT
TTCTTTTGAATATAGTATTATGTAAACCAAAAGCTTACGGATGTCTCTGT
TATCTATAATTAGAAGAAATATTAATGCTATTGCGTAACATTGTATATAC
CACCAGTATACAAATTTTACAGTTTGTAACACACGTTATACTTTCTTGTC
ATGTACGTCTCTCTCTCTCTCTCTCTCTCTGCCGTTTTTCCTTTTTGCTA
CATGTCTCATTATAGTCTTTCCTTTGCATTTTCATCACATGTTATGCTTG
TTATGTTGACAATTTGTAACCTTAAATCTGCAATATTTCAGTTTTCGACC
TTCATTTCCTGATATTGGATTATATGATCATTTTCTAATATTGGATTTAT
GATCACTTGTTAAGCACTCTTTATCATAGCTTATACACCTTATTGACATT
TATTTATTCAAACCATCTTCCAAGCTATCTACAAGAATTCCTGCATAAAC
ATAGTACATATTACATTCTCTGGTTTCATGCTGTTATTTTAGGAACTCGG
ATGTCTCTTGTCCAAGGTCAGTCAAGAGCCAACTCTTTCAATGCTCGATG
CTCTTCAGCCTTCAATGAAGGCGCTAATGGGTACTGAAATATTGATGCAC
AATGATACTGATGTAAAAGTTTGGGTTGCATCTTGCATTAGTGAAATTGC
AAGGATTATGGCGCCAAATGCACCTTACAGCGATGATGAAATGAAGGTAC
TTTAATTTCTAAAATAAAATTACTTTTTTTACAAAGTTAGATGGACTTCT
TGTTTTATTATTCGTGGTTCATATTTTTCCTGAAATCATACAAATTGATG
TAATTTTACGATATTACATGTTGCAATTCTCATTCTATTGCTCTACAGAA
ATTTTTTCAGCTCAGCATTGTAGCAGTTGAGCAATTATCCAATACCAGTG
GTCGTAGTTACTCCAGAGCCGTTTTAGTTCTTAAAACCCTTGCAAACATA
AGGCTCTGTGTTCTAATGTTGGACCTTGAATTGGATGATTTAATACTTAA
AATGTTTGAGCGGTTTCTAGACATCAAGAGGTATGTATTGTAACCATGCT
TTGTTACATGTAGAGTATCAAAAATATTTTAATCGTATCATATAAATTCT
TGCTCCCCTTTCAATGTGCAGCCTACCTGATGCTCTATTATCAGATATGG
AGAGAATCATGACCTTGATTGTAGAGGAAAGCGAAGAGCGTTCATTTGAA
CTTATGAGCGTTCTTCTAAAAAGTGTGAAGAGGGAAAATCAGGTAGCAAT
TTATCATTCACCTGGGTTATATGAGCATGAGCATCCCTTTTATTCATTTT
ATTTATTTATTTTCGCTTGGGGTTTTCAGTATGTTTCTCCCGTTTCATGG
GAGTTGGGGCAGAAAGTCTTGAAAAACTGTGCTGGCATACTCGTATTGGA
TATTCAAAAAGCAGTCAGCACCATGGGAATGGCATATACTGAGTTTTCAG
AAATTGTTGCTTCAATATGTCAAGTGGCGCCTAAAACAGACAATGTGGTA
GGTGTTCTTTTGACCTATTTCCGTTTATGCCAATTCTGAATTAATATCTG
TCTAGACTATATGGAGTGCTGGATCTATCTGCAGTGATTGCAAATGTCGT
CCTACTTTGATGTGTATGTAGAAATTATTTTTTGCCTTAATTCTTTTCTG
TTGGTTTATTTGCAATTCTGTTGATTTTTCCATGCTTTTGTATTTCTAGT
AGGAGGCGTTGTGTTGAGTAAATTTGAAAAATGGCTCTGACCTTTTAAAC
CTATATCGTACTATCGTGGGACTTCGCTTCACTCTCAGTTTGGACTTTGA
GTTTGACCAATACAGATAGTTCACAATAACATGCATGCTTCCACAGCCAT
TTAGTCATTAGAATGTAATGACCTTGTCTTCTGTTCTTACATCTGTGGCC
ACTAAATTGCTCAAACTCAAATTTTTTTTTACAGGATACTCAAACATTTG
TATCAGATGCCATCAGTCTGATGAAAAATGACGAAAATGCAGAAGAACCA
AGATCTGGCATGATTAGTGGCGGATCTGACACTCTTGTGCATCAGATCGC
TTTAACCAATTGCCAACAGATAAGTGTCGCACCACTAAGCAATTCCCAAC
CTAAAGATATTAGTAAAGGAGCCGTGGCACAACAATCTCAAAGAAAAAGG
GGTAGAAAACCCAATTCTCTGAAAAAAGAAGAGGAGGGATATGACAATTC
ATGGGTTATTGGAATAAGCAGCTCTAATAAAACACCTTGTCGTGGGAAGA
ATGCCAGAAAGAGAAGTATTCCATCTAATAGTTCAGCTTTGGCAGGTTCA
TTTTCTCCATCTGAACCTGGCAAAGAACCCAAATCTCTTGCCTTTTCAGT
CAATAATGTACAAGGTGTGAGTCTACCTTTGCCACCGGTTGAGAATTGTA
GCACTCCAGAGAATGTTCACTCTAGACCTCAATCTGGTGTGCAACAGAAA
GAAAAATCGAATAGTTCAATGAATGCAGACAACGGCCTCAATCTATTGTC
AGTCTCTGCAGGAGATCTGGTCAAAACCCAGAGTGAAGGAACGCCAGTGA
GAGTAGCTTCTAAAGTATCTGGAAGCACTGGGAATCCCCGGGGAAGGAGA
AAGAGAGGTCCGGTAAATACTGCATCTCAAGGTGATGGGAAAGCAAAGCG
TAAGAGGGCCGCAAGGAAAAGTGAAACCGGAGATGCTGCTGTGAAAAACA
GAGAAGGTATTATTCCTTCTACGACAGATGGTATTGGCAGTTCTCAGGAA
ATAAAGACGGATTTTCCAGTGTTGCAACTTGATGCTGGTGTACAAAAACT
AGGCAGGAGTGCTCCCATTGGGCATGCTACTGATAAAACTAGTGATGAGT
TTGCATATGGTGGGGCATCAAAGGTATGTTGCAATAATAATTTGGAAGTG
TTGTGCCATTTAATGTTTATTTTTGGTGTCCTGTGTTGTTAACACCAATA
AGTTCTTAGTTGAACAATTTTTATGAAGTTCATTTTCTTTGTTTTTTATA
AACGACTTTTCCATGCTATTATCAAATAACACATGGAATTAGCTGTATAT
GACTTTTCCATGCTATTATCAAATAAGAAATAACACAAGGAATTAGCTGT
CCATATTAACACATCAGCAGCTCATATTTTGTATACTCATTCATAGCCAT
ATTATACCTACTGCTTAGTATTGCTTCTGTCAGCAAACAATTTCACAAAC
ATTTTAGCCACCTATTTGAATCAAACTAGTGGTTTGTTACATTATATTCC
TGAGATATATGCTTTGTGCATTCTAAGACTCTTCGCAGAATGGATTTCTT
TTAACAATACGTTCCTCGGTGCAAACTTAGGGTCAGCTGTTAAATAATGA
TATCTACTTTTTAAGCAAAACAAAAATTCTGGATAGAAGAAGCGACGTAG
GGTGTATCATATAAGGAACGAAGATCAAAATCGTTGTAGTAACTATACTC
TGAAATATGAGAAAGCAGCACTGTTAGCCGGTGTGAAATTATGTGGTGAT
GTGTAATATAGATGCCTCATCACAATTTTTATATTTGTAAGAATGTTGTA
AAGTTGTATTTTGTAGCTTAGTTTTGATTAAAATGTTCCTTCTCAGGATC
ATGGTGAAGAGTTAGTTGGTCGCAAGATAAAGGTTTGGTGGCCAGCAGAT
GACCAGTAAGTACTAATGATCATCCCTCCTGCCTCCTTAAATTTTGTGAC
GTTTTTACAAGCCGCGTATGTTCTTCGTGATATTAACAGTTGTATCCTCT
GCACATTTTTGCTGGTTTGGATTAGAATAGACATTATCACAAATCAGCTA
CAGATATGTTGGCAGCATAAGCGGTGCACTATATCTTTTTCACATAAATG
TTGGAGAATGTGGTCTAGTCATCGACATGAACAGAAAAGTGTAAATGTTT
TGTTGCTCGTAGTAGACTTATTATGCTTCTGTGTCCTAGAATAACCTTTG
TAGCATTATTGAAAGGTTATTATTTAGGATGGCTTCTCGTCTGATGGCAA
GCTAGGTATTTAGTAATTTTAAAAATTACCCACGGCTTCATATTTTGTCA
CTCTAATAATTCTAGAAGCATGAAATTTAAAGGACCATGAAGCACATATG
TTTCAGCAGTGTGTCCCTTCCTGGGGTTTAATATAAGTTTGGGTATAGTC
CTTGTTGTTTGATAGATGATTAATTGTCTCTCCTTTTTTCTTGTCTATAT
TCTACCTTTTAGCTTCCTGTCTGTTAAAAACTTCTTAGGTTTAATACGTG
TGAAAGTTATATGTGATATATATTGGCAGGAGTTTATTACATGTGTTATG
CGTTAATATATTGCAGATATATGTTTTAATTAAATTAATTTGCCTATTGT
TTTGTTTTTTTAGGTTTTACAAAGGAGTTATCACTGGATTTGACCGAGAA
CTAAAAAAGCATAAGGTGCATTACTATGGGTGCATGCCTCTGTTAACTTC
TTTTATTATTCTTTTTTGTTGGCAATGATTTCTGTACTTCCCAAATCAAA
CTGACGCCAAGTGCAACCATGACCTATATGAATTGGTTTTGTTTTGTTTT
TGCTCGATGCTCTTGGCACTTTCCCCATCTAATATATAGGTGTTGACCCG
TCCATGGCAGGCCCGATAGTGGTAATTGTGTTGGTACCTAGCTCCCAAAG
ATGTAGTTGACTGTGTATGATTGACCTTGAAGGAAATCCCATGATAAGAC
AAACAAACTACAGCGTAAAAAGATCTTTGTCCACATCCTAAAATCTCAGT
ATAGTTGATTAAATATTTCTCTATACATGTTTTGTCTCCCTGAAGGAATT
CCAGCCCCATTTCCTCAGCTCCTGCTAGGTGATGTGGCTGGAGATGAGAA
CCAGCATTAAGACCCCTCTTTATAGCATTCTGAAAATTGGCAATACCATG
GCTTGCCTTGCACCCTCTGTTTGCATTATATTTTGGGCTTTTTTTGCCTT
CTCCATTGATTTTATGCTTTTCCTGCCTTTTCCATTGTCACTAATTATTA
GAGAGAAACTGCTTCATTTAAGAATTGTTTGTCTTCTTAAATGAATCAGA
GATTTATTGAAATCTAAAACTGATCATCAATTAGTTGTCTGTTTCACAGG
TGGAATATGTTGATGGCGATCAAGAGAATTTGTATCTTAGAGCAGAACGT
TGGGAAATAGTTGAAGATGTGAGTGAATCATGATGCATATTACGTGACTT
TGTCTTTGCAACTTTTTCTTATTATTTTGTTACTTTTTTATATAATTGGG
CAATTGAAAATATGCTTTACTGATGGTAGGAGGAAGACAGCGAGGCAACT
GAAGATACACGGCCACCTTTAGTAACTTCAGCTAACAGGTAAGCAGCTTC
TAATTATATTACTTTTGCCGTTTGACTATTTCTTAGGTCTAAAATTTTTC
AAATAATTTTGGACATACTTCACATATGTATGAACAGAATAATTTGACTG
TTGATTTTTGTAAAGAACAGAATAGTCAGTTAATTGTTTAGTTGCATCAG
CAGTCTATTTTGTTAGCTATGTAGGTTGATAGATGTTAAATTCTTGTATG
TATACTAGCCTATCTGGACTAGATTGGTAATATCTGCTCATTACCAATAA
TATGGACAGTTACTTCAGGAAATAGGCTCTTGAAAATCATCACTAGTGTA
ATGTTCCTCATTTCAAATTAAATTTCACTGTTGCTTGGTTTCATGGCGGA
TTGTTCTGTCCTAGTCTAAGTTACACCTAATGATGTCCAGAGATCATATT
AAGCACTGCTGACTTGCCTATAATTGAAATTGCCACTGATTTTTGGGATC
TATGATATTCCTAGACCCAACTATAATTGGTACAAAGGTTCTGTGAATTC
TGTCCCACTGTAACTTTTATTTGGTACACCATTATCAATTTTGAGGATTG
GTATGATTTGGGAAAAATCTGTGTTTAAATGCTGGTAATCATTATAGAAA
ATGTAATACATTATAACTTTGATAGACATGTGCAGTGTGTCCACACATCC
GATTATGAATTAGCATTCAGCTGTAAACTCAATATTTTAATATCTTTTAA
ATTGATTTAGGAAACATGAATAATTTTCCTCGTGCTTCACTTAGCAAACA
TAAAGTAGTTTAACTCTGTCCAGCAACTGGTTTTCTGTAACATGCGTTGG
AATTATCTGAGATCCTTCTACTAATATTTTAATGCCACACTTGATATAAA
ACTTTCAAGCTTCTAAACACCTTTCCTTTTGTGCAACTATCTGCTATATG
ACATATAGCACTCTGTAATGAAACAGAATTTTCCTATTGATTAAGAGACC
AATTGAGTTCAACTAGATATATGCTGTGCCTTATTACGTGTTAAACGTCT
AATCCTTCTTTTTTGATTTACTCGATGCAGGTTCCCCAGTGCTGGAGCTA
ATTCTTCTCATCCAGGGAATCTCAGTGAAACGGTGAGATCATAGTAAACT
CTTTTTATGGAAAGTATAACAAGAAGTTGTGTTGAGAATTTTGTACCATC
ATAAGATTGACTGATGATGTTTCTGTGACTGGTCATCATATTCCTCATCT
CCTATAAACATTGCAAAATTTATCTGGTTATTTTGCACTTGTTTAATCAA
AAGGAGCAAAGTGTTTAAAATTTAAGAACTGTGGAGAAGAAAATAATGTC
ATCTTTTTATTAGGCTCATGTAGAAATTATTTCTGATAATATTCTGTGAA
AATCCAATGCAGGCTTCTGCTTCACATAAGCAAGGCATGCTTGTCCGCAG
TAAATTGAAGCCAGATGGGGTGAGTTGGTCCATTGTTTACTGTGTGATCT
CTTCCATCTCTTTTATCCTGAAACTTATAAGCTGAATGAAGAAACTCGAT
GCAATTGTCTTACTATTTATAATCCATTCCTTTCCAGGCTGGAAGGACAA
AAAGGAGGACAGTGCATGATGTCCACAGCAAAATTTCACCAGCACATGAG
GCAAGTGAGCATGCTGGCGAAACAAGCAGCATCCCAGTCACTGTTGCTGG
GTACAGGGTGAAGTCTGCCAATGCACCTATTCTAACCTCCATTATAGCGA
GGTACGGTGACATTGCTGCCAAGTGCATGTTCACTTCAGCCACTGTCAGA
GCATCAATGCTTGATGTTATATGCGACATTGTCAAGCGGCTGCGAAGCGG
CAATGCGCAGCAGACCCTATCGCGGCTCGATGCTATGGAGACTGAGCTGC
GAGATGCAGAGGCTGCCAAAATCGAGGTCTCCTGGCTCCAACAATGCTTG
ACCAAGTGCCGTGAAGCTCAAGGCAAAATCCCCTCCGTGCTCAGAGAAAT
GGAGTCCAGCCTGTGGCTGGTCTCCAAAGCTGCAGAAAGGGACTTGGCAG
CCGCTCAAAAGTGGGCCAAGGAGTCCGAAAGCTGCTTAAGAGCATTAGCG
GTGGTCGGGAAGAAGTTCCGCGATGAACTGGCCCTACATGAATCCAAAGC
AAGCGAATGGCGGAATCCCCTGGATGAGCTGGCCAAGCCGTGAGCCTGTG
ATGTGGGTTTAGAGTAGCAAACATGTGTAGTTCCAGAATTTGTGGATGTT
GTAAAATGTTTGTCAAGTTAACAAGTCTTTAGTTGGATGTATTTCTGAGG
GTTTGGTGTCATATTTTGACAGGATTTCACAAGGTGAAACAAACAAAAAG
TTTTTGGTTTTCTTAAAACACAACATATGTTGCCGTACTA