| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017371783.1, is a part of gene, LOC108203070. |
| The genetic_marker, MK004415 K1859, is located in gene, LOC108203070. |
| The mRNA, XM_017371784.1, is a part of gene, LOC108203070. |
| 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_017371784.1 | XM_017371784.1 | mRNA | DCARv2_Chr9:4591504..4598469 |
| XM_017371783.1 | XM_017371783.1 | mRNA | DCARv2_Chr9:4591504..4598469 |
TCCATTTTGGTTGATGTAATTACCCGTAACCGCTGGGGTCGCCCTCTTTT
ACATTTCCGCGTCTTCCAGATCGTCTCTGTCAATTCCAGTCACCTAAACT
ATACTTACACATCAACTTGTATCTATCTCTCTTCCTTCGTTTTACACAAA
TCTCGCCGACCCAACTCACCTCATATCCCCATTTTTACCGATCCAGAGGG
AGAGAGACAGAGACAGAGAGAGAGAGTTACTTTGACTGGCAAAACAGGTT
CAATTTCAACTAATTTGTCATCTAATCCACTCGATTTTAACTTCAATTTG
AACTAAATTATATATATGCACATATGCAATTTTAAGTTTATATATATGGA
TAGATATATGTATTAAGGCTTACTGATCTGTGGTTACTTTCTTTTTCTTA
CTGCAGATTAGTTGAACTACGCTGTTCTTCGGTGCCCTAGAATTTGCTTA
TCAATGTACTGTTAGTAATCGTGGTGTGTACTTTTAATTTAGGTGCGTAT
TTCTGTCGTTTATCATTTCAGTAATTGTTTGTTTATAATGCGATGATGTT
GATTCGTTTCGTGTTTTTTCAGGAAGTTGTAAGGAATGGGGCATATTTAC
TATATTGTGGTTGCGTTGCCATGTACAGTTGGGGCTATTGTGCTGGCTCT
AGTGCATATATATAGGCACTTGTTGAATTACACGGAACCTACATATCAGA
GATACATTGTTCGGATTATCTTTATGGTTCCTGTGAGTTCTTGTACTCTG
TGTTCATTTGTGTGGAGCTATATGTGGATGTAATGTTTGGGGATTTTTTG
GTTGGGTTCGTTTTGAATCTGTGAAATGCAAGATTTCTGCTGGAGTTGTA
GTAGTTTTTAAATTTCATTCCTCGAAGTGTCAGGTTTTCTTGAACCTATA
CACACCTTCTATCGTTGGATGATTATATATATTGAGCTTTAGAATTAGTT
ATTGATGGATTTAAATTGTTTTTAGGTAAATTTATGTTTCAGTTCTTGTA
ATTTTGGATTCATTTGAACCAAAGTCTAAGTTTACAGTTAATACCATAAT
TTTTACATAGATATGTTTAAGCAGTGGTGTAAGTTTATTTATACTGGTAT
ATGGTATGCATTTAATTTTACCTATTGCTCGTTGGTCAAACGGATGGTGG
TGCCATCAACTTGTAGAACATTTTTCTATAGGCGCTTACCTGGCAGTTTC
GTAGAATGTTGTCGTTTGTGCCTATGCTACTTGGATTAGGGAATGGGTAT
CGGGTACTTGAATATGGATCTGAAACAGCCTATGGGTTAGGACTTGACAT
ATATAAATTTGGTATAGTTGAAATTTATTATTGGTTTAGTTTTTATATCA
AAAAATAGTGTTTCCTACCCTTGTAGCTTGTACACTTAAATTATATATAT
TTTATATTTATAGCTTAAAATTAAAAGGACGCATAGATTAACAGGCTGTT
TTAAGGCCTTATATCATTTGAACTTAATTTGTGCAAGATGAAGTGTGCGG
TCAATTGACACGGGTATGAGGAAAAAAATGGGGTGACCTGGTAATGGAGT
TGCATGCCATTTGGTCTTCTATACAATTTTAATAAATATATCCTGATTGT
ATGTTTTCATATTCCGTGTTTTTATCTCTTTTGCTCTATGTTTATGTAGG
TGTACCTTTGGTAGTCCGCTAACATTATGGTCATAAGAATTCCTTGTGTG
GAAAAATGCCAATGTGCTATTTTGGTATCCACTACCTTTCATTTTCTTTA
AACTAAGTTTGTTTTGCAGCAAGTTAGACTTTGCTGAATTAAAAGTAAAA
AAATTCCTACTCAACTCTGGATGAGCATAAATTATTTGATGTATCACATT
ATGTATAGAATTCCTTATATTTGTACTCTTTTGAGATTGCACTCTAAGCA
TGAAAAAGAAGAAACACTATTGTGTACAAACTTCTTTAGTATGCCTTAAT
GGCTGACATACCTGGCTGATGGCTCCACCCAGAGAAACTCCCGAATAAAA
AAAATTGCTTTTTACGATACTTAGAAGTACTTTTATATATGTAACTTCTT
TGGTCAAGGCTACTATATGCTTCTATGTGGTTTGGTTTTGCAAGTAGCTT
GTGTTTGGTGAGGATATCATGACCCACTTTCTCCCTTATATGTTTCTGTT
AAAGTATGTTTATGAGCTATGCCTTAAATGCTAATGTGGCGGCTTTACTA
AAAGAACGTTTAAGTTCTAGATTTAGTGATCAGGAAACATAAGTATTTGT
GACCTTGCAGTGTTTTCTCTTTATAACTTGGTACTTTTGTTGTAAGTTCG
TTTCTGTTTGCTCTTTCCATTTCATATGTTGAGCTGTCGTATCAAATTGT
ATTGTTTCTAACCTTCTAAATGATGTCCGTTTGACAGGTTTATGCATTAA
TGTCCTTCCTGTCCCTGGTCATAAATGAGAGTGCTACCATATATTTCAAC
TCCATTAGGGAAATGTAAGTCTACCCAAATCTCCAGTTGTATATGTGGTG
AATCCATTGTCAATTCCTGCATTTTGTTTGGATGGCATTGATCTGCTAGG
TTTCATGGTCCTACTTTGCATACTTTTTGCTCCTATATAATAAATTATAT
TGAACATAATCGTGATCCCTATTTTACTTTTAACCACAGCACATTTAATC
TAATCTATTTATGTTAAAAAATATCAAAAAAAAAAAAATGACATAAGCAT
GCTTGTGTCTGCATGGTGGCAGCATCACTTTAGTGGTTATTGTAGCATGA
TGAGCTACCAAGTTTCATAATTATTGCAGTAGATTTGTCGTATAGGCAGT
AATTATTAAATTTGTCCTGAAAATAAAGTCCTAGCCTCTTTACAGTAATT
GTAGCCTACATTATGCTATGCACCCTGTAGACCCACCAGTATTGATCACG
TATGCAATAAGGCCCAAAGGAAAGAATGGACAGGAGGCCCAAACAATGAC
TGCTCCAGCCCAAGCAAAGACCTAATACTAGAAGGGCAGTCTAGTCATTT
GTGTAATGAATTATGTGAAGAAATATTAAGAAGGGTGAGGAGTAGAGGCT
AGGATTTTATGCGTATTATTGTGTGAAGTTTACATCCAGGAGAGAGCCAC
CTCTCGAAAGTGGAGTTGTAATCACTATCATATCGTCGTATTATCTTTAT
ATATAGCTGAAACTACAGCATATTATGATTTATCTACCAAAGTCTCTACC
AATATCTCAATCCTCTCTACTATCATTTCTTTTAATACTTTCTTTTTCAT
ATTATCTGAGATTTATGATATAGTTTCATGAACATGTTTATTTGTCCACT
TCATTTAATGACATTGTATGGTGTTAATATATGCTTTGATCTCTGTGATA
CTCATCTTTGATAAATTCTTCTAGTCTACTGTATTCGGTGGCTACAACAT
CTGAATCTTGTTATACCAAGACAATTTTTGTGTTCCTACACATCACAAAA
AACTACAAATGAATGAGTCCCTTAAGTACTTTGCTCAAATATTGACATGA
TAAAGTTTGATTAGTTTAATTATTATTATAGGACATGTTCCAGTGTGTAG
CGTTGTTAATTTTTGATAGTTTGTACTAATGAAGTTAAGGAATAGCCTTA
TATTTTCAGTGCATATGTGATATATCTTTAGTTGCTGAATAATTTTTGAG
AACATGTTTCCTGTAAGTTGGCTGGCTAAACTTAGCTTTCTGCTCCTTTT
TTCTAGATATGAAGCATGGGTCATATATAATTTCTTGTCACTGTGCCTAG
CATGGGTTGGTGGACCAGGAGCTGTCGTAATAAGTCTTAGTGGCCGCTTT
CTGAAATCCAATTGGTGTCTAATGACATGTTGCTTTCCTCCTATACCTCT
TGATGGGTGAGCTATTCCATCACTCCTTCCTTATCGTTGATTGTTAATTG
TGCATAGACAACCTCTAAAAGAGTTAAAATCTGGTTTTTATGACAAAAAT
ATAAATGTGTTGCTTAGTTTCCAGTGGACAATTAAAGTCATTGAGATGAA
GTGAAATTTCCGTGTAGATATTGTAGTTTTTTTAGCGGACGAATAGACAT
CAAAAGAAGCTTGCTGCTTCTTAAAGGGTGAAACAAGGATACGAGTGTAT
ATGGATAATATAATCATCTGAAACACAAGAATCTAAGTTAGAACATTTAG
TTTTGTAGTAATGAAAAGTTTGCTAATTCACTTATGTTTTGGTAGTTAAT
TTATACTCCCTCCGTTTCTCTTTACTTGTCACATTTCTATTTTTATTGGT
CAAATTGACTAATATTTGACCAAAGATTATAAGTCACTCTTACATTATTT
TAAAGAACTAAAAATTACATATTAAAGTAGATTGAAAGTTATTTTCAGGG
ACATATTATTTTTATCTTATCAATAGATAAATATTAATAAATTCCGGTCA
AGCTTTGGTCAATTTGACCGGTCAAAGTCAAATGTGACAACTAAAAAGGG
ACGGAGGGAGTAGTAATATTAATTACAGATTGTAAAAAAAAGAAGTCCTA
GATGGGATTGTGAAAGTTTCCTATCGCTGCTTCCAACGTGAAAGGGTAAC
CTGAAAAGAACGAAGTTCATGTGGTATGTTTTTTGTTGAAAAAAGTGGGA
AGATGGAAACAAATCTGAAAGGATCTTTTCTTGCTAATATCTGTCCAAAG
ATAAGTGAGAACTCAAAAACTATTAGCATTTCTTTTATATTTTTATTAAT
AACCACCAAATACGAACACAATTAAATAAAAATAAAATCAAAATAATGGC
TAATATAGTTTTCAAGATTAAAAGGTTCACAGTTCTTCTATAATTTTAAA
AATTAACCTTGTTACAGCACGAGGAATGAAAGGACAATGAGTGTTTTTTT
AATTTTGTTTGTCCCTTCTATCCACAATCAAATCTTGTTAGGATCTTATG
TTAGTAGGAATTTATGTTGATTTCTTTCCTATATGCATTATATTTTGTCA
TTCCAGTTATTGAGTTAGCTGTAGTATCTGTAATTCTGTATCATAGAGTA
TTTAAATTCTGAAATCGTCTTGGTCTTTCTTGGCTAGGAATTACATGCCA
CACTCAGGCTTCTGTATTTCCTGAGAAACTATTATTTAGATATTTTATTG
AAGGTTGTTGGATAAAAACTATTTGGATTTACTTGTGAAGTTGATTTACA
TATGAAGTTGACATCTCCGTACTTGATAAACCATGTATCTGAAGCTGTTA
AAGCTATGCAGGCGTTTTATTCGAAGGTGCAAGCAAGGGTGTTTGCAGTT
TGTGATCCTTAAGCCCATATTAGTTGCTGTGACACTTGTTCTTTATGCAA
ATGGAAAGTATCATGATGGAAATTTCAGTGCAGGACAGTCATATCTATAT
CTCACTATCATATATACATTCTCATACTCTGTGGCATTGTATGCCTTGGC
CTTGTTCTACGTTGCATGCAGGGATTTGCTCCAACCATTCAATCCTGTTC
CCAAGTTCATCATCATCAAGTCTGTTGTTTTCCTGACATATTGGCAGGTA
CCGCTGAAGATTTGTTTTCTTTTTATATGTTGATCTCTGTTGTTCATCTA
AGTGTACTTAATTGTTAAAATTTATTTATAGTAGATTATTCGTGACTGAT
AATAACATTTACTGGTGATATATGTCAAATATGTGCTGGTAATACATTGA
TTCAGATGCAGCATATGGGTGATCTGGCTCATATGTTTTAGTATCATGTC
TAATTTACTAATCACCTATGTGCTGACATATAAAGCTTGTTGCATAAATA
TTTTCTCGTATGGTATTAATCATCGTTTGAATCATTTAGTCTTTTTCTAA
GGGTACAATCTAACTGATTAGTTTCATGTCTTTTACTTCTGAGGCTAGAT
AGATAATACTAAGCTTTAATTGACATCAATTATATTCTTCTTGCTTAGGG
TGTATTGGTATTTTTAGCCGCAAAATCTGGTGTCATAAAAGATACAAAGG
AAGCTGCAGAATTTCAAAATTTTATAATTTGCGTTGAGATGCTAATTGCT
GCTGTTGGTCATCTCTATGCATTTCCATACAAGGAATATGCTGGTGCAAA
CATTGGCATTTCTCGAGGGTTTTCAGAAAATCTCGCACATTCTCTCAAGT
TAAATGACTTCTACCATGACACTGTTCATCAAGTATGTCGACCACTTTCT
GGTCATGTTATGTTTCAGCTTCAATCATTTATTATATTAGCTGTTTTGCT
ACTTATCATTCCGTTCATCCTTGAAGTTTCATGTAGTATTGTCAATTTTA
CTGCAGTTTGCACCAACATACCATGATTATGTACTCTACAACCATAGTGA
GAGTGAGGGGGAATCAAGGAAGTATCGAGCTCGAACTTTTGTCCCTACTG
GACCAGAAATGGATACTGTCAGGAAAAATAAGCATATGACTGGAAACAAG
TTAGAAGACATACAGCTATCTAGTATCTCATCTAGTACTCCCCCAAACCA
GAGCACCGTACAGGTTCTACAGGATACCTCAAAATCCGAGGCAATGAACT
CTTCGTTACTAATGGATGCTTCTCTAGCGGTGCCATATGACCTCACACTT
GTTGACATAGACATGTCCAGTTATTCGGGAGAGGTGCCTGCGGCTACTAA
TGAATCTGGGACAAGGTGACGATGGTGTTTAGACCCTAAATTGTAATTTC
TGGTCCAATAGCTGTTCTTCAGTGCTGATACTGTCCCCCTCCCCTCCTCC
CCCTCATTGTATTGCTTTCCTGTTGTTTTCTCTCTAATGTCATTATATTT
TGTACATAAAGGATACGTCTTGACACACTTACACAAATGTATGCTGCAAA
ATGTACTGTAGACACGTAAGTATATTTGTTTTTACTTTGCAGTTTGTATC
AAAATTAATTTAAATTATTGTACCTTGACGCCGTATGAGATTCTCCCTGT
GTGGAATGATATCATCTTTGCCTCATGGGTGGATTTGATCATGTAACTAT
ACAATTTGCTGGACA