| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017359753.1, is a part of gene, LOC108193196. |
| The genetic_marker, MK007881 TP30911, is located in gene, LOC108193196. |
| The genetic_marker, MK007872 TP178742, is located in gene, LOC108193196. |
| The genetic_marker, MK007873 TP92313, is located in gene, LOC108193196. |
| 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_017359753.1 | XM_017359753.1 | mRNA | DCARv2_Chr7:35067590..35075416 |
ACAAACACGTTTCATTTACAAAAACCCTCACACAAACACACTATATATAA
ACACACAGTTGTACACCCTCCCAAAACCCTCTGAATCTTTCGGTTCTTGA
ATATACATACAAATACTTACACACCCTTTTCATATCTTGTTCTTTCTTGT
GAACTTGATGTGTTTTTCTTGCCAAAAAGTGTAAAAGATTGCAACTTTCT
TGGTGGGTTTTTTGTTTAACAATGGATGGAAGTGATATATACAATGCAAG
CAATAGTTTTAGAAAAAGTGGCAATCTTGGAAATCTTTCTTCAGTGTGGA
GGAATAATGGCATGGATGTTTTCTCAAAGTCATCAAGAAAAAGTGACTTT
TTTGATGATGAGGAGGCTCTGAAATGGGCTGCTCTGCAGAAGCTGCCTAC
TTATAATCGCCTGAGAAAAGGGCTTATTCTTGATCCTAGTGGGGAGGGTG
GACATGGGGTTCTTGAGGTTGATGTGGAGAGTCTTGATGTGCAGCAGAGA
AAGGAGTTGTTGGAGAGGCTGGTGAAGGTTTCTGAGGGTGAGAATGAGAA
GTTCTTGATGAGACTTAGGGAGAGGCTTGACAGGTTTGTTTCGAAAACTC
GAAAAGGCCCTCTTGATTTTGGTTCTTGTTGTAACGTATGTAGGAATGAA
TAGGGGTTTTAGTTTCTTGGTTTGGTTGTGTGTGTTTTATGTGTGATCAA
GAATTTCGGGGTTTAAGGTTTTGTTGTTTGTGTTGAATTTTGTTTCTTCG
TGTAATGTATGTGGTCATGAATTTTGGTTTTATGTGTGTTTTTGTGTGTT
GGAATAAGGGTTTTGTGTTTCTTGGTTTTGTTGTGTTTATTTATGTAGAG
TCGAAATTTCAGGGTTTAAGGTATTGTTGTTCGTGTTGAATCTTGTTTCT
TGTTGTTATGTGTGAGGTCATAAATTTTGGTTTTATGTGTGTTTTTGTGT
GTTAGAATTAGGATTTTGTGTTCTTTGTTTTGGTGTATGTGGTTTATGCG
GAGTCGAGAATTTCGGGTTTAAGGTGCTCTTGTTTGTTGAATTTTGCAGA
GTTGGGATTGCATTGCCCCAAATTGAAGTTAGATTTGAGCATTTAAGTGT
TGATGCAAAGGTTTATGTAGGGAGCAGGGCGTTGCCTACTTTCTTGAATT
TTGTAGGGAATGTAATTGAGGTAGGCTGAGACATGCATAATACAAGGTTT
TTATTTGGTTTTTATTGTCTTCTTGTTGGTTGTCATGCTAAGAGTTCTTT
CTTTTGAAAAGGGCTTTCTGAACTACCTCCACATACTACCAAATAGAAAG
AAGGATTTGTCTATACTTCGTGATATCAGTGGAATTGTCAAGCCTTGCAG
GTAACTGCATCAAGGGAATAACTTATATTGATTAGTATGTTGTTTTTAGT
TTCCTGTTTTTAATAACGTAATATTAACTGCAGTTTGTGCGTCTTTGCAG
AATGACATTGCTTCTTGGGCCGCCAAGTTCTGGCAAGACAACATTGCTGC
TGGCTTTGGCTGGAAAGCTTGATTCTGATCTTAAAGTATGTAGTTTTAAA
TTTTTCTTGATCACTAGGTAGTAAGAGTATCCAACCTGAAAATGTTATTT
TGTGATTTTGCAATGCTAGACTTCTGGGAGTGTGACTTACAATGGTTATG
GCATGCACGAATTCGTACCCCAGAGAACTGCTGCCTATATCAGTCAATAT
GATTGCCATATAGGAGAGATGACTGTGAGAGAAACCTTTGCTTTTTCTGC
AAGGTGCCAGGGAGTCGGATCTCGCTATGGTCAGCAAAAAGATTTTCTGT
TGTAGAATTGTCGTAGTACATTTTCTGTTTATCTACTGGGACAGTATTTC
GTGAATGTGGCATAATTTTATCTATTTTTCTTATCTTTGCAGAGATGCTA
GCTGAACTGTCAAGAAGAGAGAAAGAAGCAAACATTAAGCCCGATCCTGA
CATTGATCTCTTTATGAAGGTAATATCTGTTTCCTGAAGAAATGTGCACT
ATGCAAGTGACATCTGTCTTACTTTATATCCCTGCGAAACGAACTGTTCT
TTATTTCACCCTTTTTTTTCCCTTGAAATATGTCCAGCAGTGATATTTTT
AATGTTTCACTCTTTTGTCCTTTCCTGTTCCAAAACCAACAAGGATTTCA
TACAAAAGATTTTCATCAGATGATGCGAGTGCTTCACCATCAACCATTCA
AAATATAGCACATAATCTTCTTCCATTTTAATCCTATGATCGATTTCAAG
GCAACCGATATCATTATAGCTAGATGTCCTGCTGATACTTGTGAGTTGTG
TGATTTATTAATATATTTCCTCTGTAATCTCTGATGATCCAGGCTGCTGC
AACTGAAGGACAAGAGGCCAGTGTGGTTACAGATTATATTATAAAGGTAT
TAACAACAACATGGCTATGTTTCAAAGAAAATGTAATAAGAAACTTAAGC
CATCTTTTCTTTATTTTTGTCGCTAGCTTTTGGGACTAGAAATCTGTGCA
GATACTGTGGTTGGAAGTGAAATGATAAGGGGTATTTCTGGTGGACAAAG
GAAGCGTGTTACTACAGGTACAGAGGGAATCTAAAGTTAGCAGGTGTATT
TTACTGATCTTTTGTTTGGTCGTTGCATTTGGATAACTAATAACTCTAAG
CACATCATTTCAGGTGAAATGTTGGTTGGACCATCAAACGCACTTTTTAT
GGATGAGATATCTACTGGTTTGGACAGTTCAACAACATATCAGATTGTAA
ATTCACTACGCCATGCAGTCCACATTCTTCAAGGAACTGCTCTCATCTCC
CTTTTGCAGCCAGCCCCAGAAACTTATGATTTATTTGATGATATTATCCT
CCTATCTGATGGCCTTATAGTTTACCAAGGTCCTCGAGAAAATGTGCTTG
AATTTTTTGAATCAATGGGTTTCAAATGTCCAGAGAGGAAAGGAGTTGCA
GACTTCTTGCAAGAAGTAAGTGTGCATTATTTTTATAACATTCAACTACT
TGACCTAAATTTCAAGGGCATGTACAGATGAGCCTTACAGGCATAATCTT
ATATCTTTTGTAGGTAACATCAAAACAGGATCAGAAGCAATACTGGTTGC
ATAAAGATGAACCTTACAGATATGTTACAGCCCAGGAATTTTCCGAAGCT
TACCTATCATTCCATGTGGGGCGGAGACTCGGTGATGAACTTGGAACTCC
ATATCACAAGAGCAAAAGTCACCCAGCTGCTTTGACAACCAATAAGTATG
GTGTAAGAAAGATGGAGCTCTTAAAAGCATGTACCTCAAGGGAAATTTTG
CTTATGAAACGAAATGCATTCGTTTACATCTTCAAATCGGCCCAAGTAAG
TATTGTTATATCACATGCCAAATATTGACGTTAGTTTTTGCTTGATAATA
AAAAATTCATTTGTTCTGCTAGCTTTTCATTGTGGCATTGATTACGATGA
CATTATTCCTGAGAACTGAGATGCACAGAGAATCACTAAATGATGGAAGC
ATATACATGGGTGCTTTGTTTTTTACCGTAAGTACGATCATGTTTAACGG
AATGGCCGAGCTGTCTATGACCATAGCAAAGCTTCCTGTCTTTTATAAGC
AAAGGGATCTTCTGTTTTTTCCCCCTTGGGCGTATGCACTGCCTTCATGG
ATCATCAAAATCCCTATTTCATTTATTGAAGCTTTCATCTGGGTACTTCT
TACTTATTACGTTATTGGGTTAGATCCAAATGCTGGAAGGTAAAATTTTA
TATGTTGCATTAATATTAACTTCTTCTTTAAGTGACTCATGCATGTTTCT
AGGCTCTATAATGATAAACTATCCTACTGCAGATTGTTTAAACAGTACCT
GCTTTTAGTACTCATCAACCAGATGGCTTCGGCATTGTTCCGGACTATTG
CAGCAGCGGGAAGGAGTTTGATTGTTGCAAGCACGTTTGGTTCATTTGCA
TTGCTTATACTATTTGCACTTGGGGGCTTCGTGTTGTCACGAGGTAAAGA
CTGCAATTTCACCTTTTGCAAATTGTCTTAGTTGGACTAACCATGATGTT
TCTTTTCCTTCTCCATATTTGTCCAATAGTTAACGTAAAGCAATGGTGGG
TATGGGGCTACTGGACATCGCCAATGATGTATGGGATGAATGCCATTGCA
GTGAATGAATTTCTTGGGCACCAGTGGAATCATGTAAGTATTAACTTTAT
AGACTTTAAGCATGTGCCTGTGCTCCTGTTTGAATCTTCGTCAGTTGAGC
CACAACCTAATTAATGGAACTTTTTTGTCAAAGGTTCTTCCTAACACTAC
AGAGCCACTAGGAGTCTTGATCTTGAAATCACGAGGGTTCTTCCCCTATG
GATATTGGTACTGGATAGGAGTTGGGGCATTGCTTGGATATATATTTCTT
TTCAATTTCTCCTTCACCCTGGCTCTGAATTTTCTTAACCGTGAGTAGTC
TGTACTTCTTAATATTATGTCTACTAATATTGAGAGTTTGTCTAATGATT
TTCACAAAATTTTGCAGCTCTTGGAAAGCCTCAAGCTATTATACCAGCAG
AAAGCTACAAAGGAAGAACTAAAGAGGGCGTTAATCAGCAGTCATTTAAA
GGTTATACCGACACTCTGTGCTCCTTTTTTTTTTTCTTTTTTTTTTTTCT
GGTTTTCCTANACTCTGTGCTCCTTTTTTTTTTTCTTTTTTTTTTTTCTG
GTTTTCCTATTTTTTGCATAAGATTGTCATTCTCTATATCCTAATAAACT
TCAATGACTTGCAGATGGAAGTGATCATATGGCAAAAAATTCACCTCCAT
TTTTATCTGCTAGAACAGAAGATACTGCGGAGGCTCATAACAAGAGGAAA
GGAATGGTTCTACCTTTTGAACCACACTCAATTACGTTTAACGAAATCAA
ATATTCTGTAGACATGCCTCAGGTAATTAGTAAGATGAAACAGTATTTAT
TCATGATTAGATATATATATAATCTTATATGTTTGTATATGACTTCATTG
AAGGAAATGAAAGAGCAAGGTATAAGTGAGGATAAGTTGATGCTCTTAAA
AGGTGTGAGTGGTGCTTTCAGGCCCGGTGTTCTTACTGCTTTAATGGGTG
TAAGTGGTGCTGGAAAAACAACACTGATGGATGTACTGGCGGGTAGAAAA
ACAGGTGGATATATTGACGGTCATATTACAATATCTGGTTATCCAAAGAA
ACAAGAAACCTTTGCTCGGATATCTGGATACTGTGAACAGAATGACATTC
ACTCACCTCATGTTACTGTCTATGAATCTTTGCTCTACTCAGCGTGGTTG
CGACTGCCTATAGAAGTTGATTCGAGGAGTAGAAAGGTCGGATATATAGT
TCTATACATTGTGTCGCGTGCTTCTTAGAATTAAAAGCAGGAAAAGTCGC
AGACAACCTAAATTTGAATTTAACTCTTTGGAACTTTTGCAGATGTTTGT
TGATGAGGTCATGGAACTTGTTGAACTAAACACTTTGAAGGATGCACTTG
TTGGCTTGCCAGGTGTAAGCGGACTATCGACCGAGCAGCGCAAGAGACTA
ACTATTGCAGTTGAGCTGGTGGCAAACCCATCAATAATATTTATGGATGA
GCCAACTTCAGGTCTGGATGCAAGAGCTGCTGCTATTGTTATGAGAACAG
TGAGAAACACAGTAGACACAGGAAGAACAGTTGTTTGCACCATCCATCAA
CCAAGCATAGACATTTTCGAAGCTTTCGATGAGGTTAAAATTGTTACTAC
AATAATGGCTATTCATTAGTTCTTATTCACTTAATTATGTTGATATTGAA
TATTGATAATGGGTTTCCTTAGTTATTACTGATGAAACAAGGAGGGCTGG
AGCTGTATGTTGGACCAGTGGGACGGCATTCTTGCGAGCTAATTAAGTAC
TTTGAGGTGAGAATACGGATACGAAAAGCTATGCAATTAATTTTTCCAAT
AATTTAATTAAGTTCTGAAACATGATCATTCTTGTAAAAAGGAAATAGAA
GGAATAAGTAAAATCAGTGAGGGATATAATCCAGCCACCTGGATGTTGGA
AATCACTAGTCCTAAGCAAGAAATGATTCTTGGGATTGATTTCACTGAAG
TGTATAAGAATTCGGATCTGTACAGGTTAGTTAAACTTTATCATTTCCAT
CTAAATATTATAACATCGGTTTTAGCCACATCTTTACAGGTTAGCAAATC
TATTTTGGCCATCTATATATTATAACATGGCCAAAACGAATGATTTTTAT
CTAGTAATTTCAGAAGCAAGTTTTCTTTTTCTTTGATAATTATGCAGGAG
AAACAAAGCTTTAATTACTGAATTAAGTACCCCTCGTCCGGGGTCAAGGG
ATTTAACTTTCTCTACTCAGTATGCTCAATCATTCCTTAGCCAGTTTGTA
GCTTGTCTGTGGAAACAGAGAGCATCATACTGGCGGAATCCTTCCTACAC
TGCAGTCAGATTTCTCTTCACAACCTTCATAGCATTGATGTTTGGGACGA
TGTTCTGGGATCTTGGTACCAAGGGGTAATATTACTTTGATTCCTAGCTC
TATTCCATGTTCCAACATTCATGTTACTATCATCTCTTAGTCCATCTAAT
ATCTATATCATAAACACAGGAAAACTAGGCAAGATCTCTTCAATGCAATG
GGATCTATGTATACTGCGGTTATCTTTATTGGAATCCAAAATGCTTCATC
GGTGCAGCCAGTAGTGGCTGTCGAACGGACAGTGTTTTACAGAGAGAGAG
CTGCTGGAATGTACTCGTCTTTGGCATATGCATTAGCTCAGGTAAACAGT
TTATTGATTCTATATCTGAAGTCATTGTTCTTGGACTGTTTCCCATCTTG
CCTGTTTTAACAAGAGTTGTTTTTTTTACTTGTAAAGCTTATTAAACTTC
AAAACTGATACAAATTTTCATTACACTGAGCTGCTTTCAATCTGCACTTT
CTAGGTTCTGGTAGAAATACCATACATTTTTGTGCAAACTGTGGTATATG
GTGCTATTGTATACTCAATGATCGCATTTGAGTGGACAGCTGCAAAATTC
CTATGGTACTTGTTCTTCATGTTTGCCACTTTATTGTACTTCACCTATTA
TGGCATGATGACCGTGGCTCTGACTCCCAACCCAAGCATCGCTGCTATTA
TAGCCGGTGCTTTTTACGGACTATGGAATTTATTTTCCGGATTTATCATC
CCCAGAACTGTAAGTCGTTTAAATCCCATTTTTATTCAATTTATGATTAC
AACAATATCAACGATTTCATGCCATTTTCCTTTTATTTGGTAAAACAGAG
GATGCCAATATGGTGGAGATGGTATTACTGGGCCTGCCCTGTCTCGTGGA
CACTGTATGGAATGCTGGCTTCTCAGTTTGGAGACGTGCAGGATGTGCTG
GTTGATGCAAATATCAGTGTCGCAGAATTTCTGGAAACATTCTTTGGATT
TCACCACGACTTTGTTGGAGTTGTCGCAGCTGTCGTCTCTGGTTTTGCAC
TTCTTTTTGCTTTCATTTTCGCGTATTCCATCAGAGTACTGAACTTCCAA
AATCGATAGTCGTTACTCACCTGACTGAGTTTAGGCAAAGTATGACAACC
TCTTACATGGATATAGTTCAGATCAAGTTTTGGTTACGAAATTCGCATTC
TTTTTTTACATTTCAGAAACATCATTCATGTCTCAGAGCTCAAGTCCTTG
TAGACAATATTGTCTTCCTACATAAATATTTGCATGAAGTTCATTTGATA
ATCACAACATTAGACATTCTGGTATAAATTTTTTGTTCTGAAATGTAATC
AGATATCGAAATTTTTTGTTCAAGTT