| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017367504.1, is a part of gene, LOC108199603. |
| The genetic_marker, MK004601 K2045, is located in gene, LOC108199603. |
| The genetic_marker, MK018948 8_26716621, is located in gene, LOC108199603. |
| The mRNA, XM_017367503.1, is a part of gene, LOC108199603. |
| 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_017367504.1 | XM_017367504.1 | mRNA | DCARv2_Chr8:26710868..26717620 |
| XM_017367503.1 | XM_017367503.1 | mRNA | DCARv2_Chr8:26710869..26717620 |
TTAAACTAATAACACTTACATTTTCAACACAAATATATCAACAACTTCAT
TTCAGATATATCAAACTAAATTCAACTCCTTCACTTACACAACCCTGTCT
TCGATCTTACACACCCACATAAAAAAAACCCATTTACAAGACATCTTTTT
TTACATGATTTGATGCTGTCTAGCTCTTTCTAGTCAAAACAGATTCTGGG
TATTTCTTGGTTTGTGTTTTCTTGAGCTGGGGTTTGGTTTAATTGAGGTT
TAGAGATGTGTTGTTGAGTTGGGGAGAAGATGAAACTGGGTGGTGTTCAA
GTAGCTAAATCTGGGTCTATGCCAAGTTCAAGCTCTCATGGGTCGACCCA
ACAGTTTCCTGCGGGTCTTCGGGTCCTTGTGGTGGATGATGATCCAACTT
GTCTCATGATCTTGGAGAAAATGCTCAGGACTTGTCACTATGAAGGTATA
AAGACACATATGTATGTATTTATGTTGGGTTGTGTGTGAGTATGCATGTG
TTGCTTTTAAGGTTTGGGTGATTTGGAGTTGGATTAGTTTGGGATTTTCT
TGGTTTGGTTGTTTGGGTTGGTAAAGGTCAAAGTTTTATTTGATATTTAG
TGTTTGGTCCTCTTGTAGTGAATTGGATATAGTTTAATTACCAATTTTGG
GCTTTATTTGTTGTTATTAATGTTTTTCTTAAGAGATTAGTAGTCTAGGT
TAGGCAAGTGACTAGCAAATTATTGAGATTTGGGTGTTAAATTGATGGTT
TAAGTCTATGGAGTATGATTTTGCGCCAACTTAGATACTGGATACGAAGT
TTATTCCGGTATCTGTTTGTGCAAGAACTGAGATCTATTACATATGGATT
GGCGTATGTAGCTAGTTCTCTCTCTGGGTTATATGTGTGTGTGTTTGATG
ATATCCGAACTTTGTAAGTTTTGGTCTTTGACTGTGTTTTTTGTATAAAA
AGTACTCCCCAGCCCTTGCTAGGAATGGAAACTTTATACACAAATCAACT
GGCATTTATTGATACACATTTATCCTTGTTTTGAAAAGTCAATGGCATCC
AGTTATTTATGTGGTCATTGGTTATTGATTTTATTGCTTTCTGGGGTTTC
AGCGACAAAATGCAATCGAGCTGAGATTGCATTAAACCTACTAAGGGAGA
ACAGAAATGGATATGATATTGTTTTAAGTGATGTTCACATGCCTGACATG
GATGGGTTTAAGCTTCTTGAGCACATTGGACTGGAGATGGACCTCCCTGT
TATCAGTAAGCAGCATATTACCTTTCTCCGGGATTTTGTAGTAATCTAAT
GTACAAAATAGATGGTATTCGTTCAATTGGTCTAATCAATACGTATAATT
ATTCAAACAGTGATGTCTGCGGACGATAGCAAGAACGTAGTAATGAAAGG
TGTAACTCATGGTGCCTGTGATTACCTGATCAAACCAGTTCGTCTTGAAG
CATTGAAGAACATATGGCAGCATGTAGTACGCAGAAAGAAACATGTGTGG
AAGGACATTGAGCAATCCGGCAGTGTGGAAGATGGGAAGCTACAGCAACA
GACACCTGACGATGCTGATTACTTGTCTTCTGCAAATGAAGGCAGTTGGA
GAAACTCAAAGAGAAGGAAGGATGAAGAAGAAGATGCAGACGATAGAGAT
GATGACACATCGTCATTAAAGAAACCACGGGTTGTCTGGTCAGTTGAGCT
TCACCAACAGTTTGTAGCAGCCGCGAATCAACTTGGAATTGACAGTAAGA
ACTTTTTTTTTGCTGTTCTGATATTTCTTTTATGGTTTGCCAAATATGAA
TAATATGTATTGGTTATAGCTGTATGCCAATATTATTTAATTTTTAAACA
AGTTCCTATAGCCGGTCGGCGTGGTTTTAAAGAATTCTCTAGAGTTCTTT
AACATATAAACAAAATTATGAGGGCTTATTAGTTTGTTTTCATGAGCACG
ACTAGATGATTAAACTTGAAGTCAAGTTACGAGGCAAAAAAAAAAACATA
AGTTTTAATATGTTCAGGTATTATTATATATCCAATTTGATATAAATCTT
GAAGAATGTCAGTTAGACCTTTCTCATTTCTTTATATCTTATCTTTTTCT
GGTTTTCCATTTATCAATATTTTCTCCCGGAAAGGAAACAGTGGGAAGTA
AAGGAAGTAAATATGTCGAGTCCTAAGAGTTTTAGTTACCAAGGTAGGAA
GTACAGGGGATATTGATTGGACATGTAAAAGATTGTTAAGAGGAATACTA
ACTTGGCATTACAAAATTATTCCAAGAGTTTTTCATTAACTTTACACCGA
TTCAATTCATTGTTAGAGTCAAAGTGAAGGTAGTTTTACTTCCTTTACAT
TTGCTTTACTTCTCTTTTAGACTCGGAAGCAGAGATGGAGGTAAAAATTT
ACTAACTTTATCCTAGTCATTTTCTTCCTTGCTATCTAAGTCAGAAAGCT
CCCAGGGAAATTGACTTCTACTCATTTTCTGTTGGTCCCTTTTTCTAACT
TTAGTCAGAAAATTGAACTGAGATGCTTAATATCTTCAAGCAAGTCATTT
GGTACATTATCCAAATTATTGAGGACCAAGAGACACCATTTATGTAGGTA
ATTGGCAGATGAAATCATGCAAACTGACGAACAGGAATCAACAAGAAGTT
TTTTTAATTTTATATTGACATCCATATATTTTAGTGGTAGAAGAAAACCA
TTTGTAGAAGTCCAGCCACGATCTACTTCCTGTCACACTAGTTTTTTGAT
CCATGAAAGGAAAGCCCTCTTGCAATTTCCAAGGGCAACCTTTTCATCTT
TGCGAGTTGTCTAGTTCTCATGTTATATATTATCATTCCTATCAAATTTG
AGAACTTGATAGTGATAGCATCCAGTGAACAAACCAACTATTGCTACATA
AATTAAGTCAACTAAACCCATTCGAGCCCAAATAAATATAAAAAACAAGA
GATCTTGAAGTAAAATTATCTAATTATGGGTGGTCCGAGTTTATGATATC
TTTATGAGCTGAAAGTTAGGGGTTGACTATTTAGCTAAATGATTATGAGA
CCATCTCTAACCCATTACAACATTTGGTGTACAAATTACATCACTCACAA
AATCTACTGGAGCCCACCTACACTATAAATATTACACCAAAAGTAATCTT
TTGTGTAACAAGATATATTCCCTCTAAACTTGTCAAAAGTATTTGTTTTG
TTGGGACATAATAGGGTATAAATGGGACACACATCTAATAAATATGTTTT
GTTAACAAACATAAGGGTACTTGAAATTTTGAAAAAATCTAGAATGGTGT
AAAAATTACACCAAATATATTATATTGGTGTTGGGTGGGGATGCTCTAAG
GGTATGTGCAATTGTAGCCCGGTGAGTGGGTGACGAAATTTAGGGGTGAC
GGCATTTTGAGAGGCAAGAATCGAGATACATAGTATTATATGATTGTTTT
TTACTTTTCCCCAACTTATTTCTTACTTTAATTTTTTGAAACCTTATATT
GAATTGTAGAGTATTTAGCTTTTATAATATTAATGAAGAACCATACTAGG
TTTAAATTCGGGTCTTGAGGCAAATAATGTGAAATCATACACGACATATA
TTTAGTGTTGCTATGAATGGATTTGGATGCAAGTACGGGAAGAACAAAAG
TAAAATGATTATCATCAATATGATCTTTTCTTTAAAAAATCATTTCCTTA
GTTTTTTAATTGAGTTCTGCAGACATATATGTGATTGTGATCTATATAGC
AGCCATTTTCTTTCAAGTTAAATGAAGCATGTATGCATATTCAGAATGAT
AATGACATAATTTGCACTTTCTTATATATTTTCCAGTTGTGATGTGTTGT
TTTAGGTTGAGTGAGCATTTTTATGTAAAAGTAGTTTGGAAACTGAATTT
TGTGATCAGTAATTGGATTGGAACAGAAAACATAAAATTGGTAATAGACT
CATTAAGGAACCTAATCCACCAATTTATTCAATGAATTTAATCTGTCACA
GTATTTTGATATCTTCATGGGATAATAATGCGATTTCCGCTTAGCAAAAA
AAAAGAGACTATAATAATGCCATTGCTTAACTATTTACTATTATTGTAAT
ATTACACATACGTGGGATTTCTTTTTCCTTTTTTGAGATTTGAACCTATC
CTGCTCAGGAGTAGTCCAGAGTAGTTGCCTACTGATAAACTCTATAAGTG
GGAGTAATAGCTTTCAGTCTTGTTCTTCTCATTAATTTTTGCAGAACAGA
AGCGAGTTTTGTGTTAGTTTTAATAGAGTATCCTTATACACATATATTTT
AGTAGATCTTCCCTCTAAATCTACTTAGTGTCCTACATTCCTTTTCTTTG
TATAATGACGGGTCTCTATTATAACAGATTATGTAACTGTGTAAGTTATG
AAATGCTTCTATATTGAGTAACTATAAAGCACAGGTTCGTGTGGCAAGTC
TCTTGTAGGTTTTAAATTACATTACTTATCATGTTGCCTATACTTATGCC
TCTTAGGAGCTTTCGAAGTAAATTATCAGGACTTGTGTGTATATTTAAAA
TTAAAATTTCACAATTCGGACTTCAGAGGACAATACGGGCCTCTTTTGCA
AGATGTGTTTTGGTGTTCAATGATACAATATTGATTTGTTTGTTTCCTTA
TATATTGACTTATGTAATTACAGAGGCTGTTCCAAAGAAAATTCTAGAGT
TGATGAATGTTCCTGGACTCACTAGAGAAAATGTAGCCAGTCACCTTCAG
GTAATTTTCTTTGATCTTTGGAGGATATTTTCACGAGAGCTCTTTAAATT
TGATGAAGCAATGTAGCATCTCTTAATTTGTTCTTTATAATCTATCCATT
CGCGAACTTTTTCCTTGATCTCCTTTGGAAAGTCCTCATCACAGCAGTAA
CTCTTTGCAGAAATATCGCCTATATCTTAGAAGATTAAGCGGCCAGCACC
AGAATGCACTCAATGGCTCTTTCATGGGGAACCCAGAAGCAACTTATGGA
TCGATATCTTCGTTCAATGATCTAGAACTTCAAGCATATGCTGCAAGTGG
TCAACTCCCAGCACAAAATCTTGCAGCACTTCAAGCAGCAGCGTTTGGCA
GGTCTTCGTCGAAATCAGTTGTATCACCTCTAGATCAAAGAAACCTTTTT
AGTTTTGAAACTCCAAAGTTACGCTTTGGAGAAGGGCAACAACAACACCT
GAGCAATAGTAAGCAGGTGAATTTCCTCCATGGTATCCCAACAAATATGG
AGCCAAAGCAACTTGCCAATTTTCATCAAGCTGCCAATTCATTTGGAATT
AATATGCAAGTCGGCTCTCATGGAACCCAAGGTAGTTCTCTGATGATGCA
GATGGCTCAACCACAGTCAAGATCTCAAATACAAAATGACATTAGTGGTA
GTTATGTTTCAAGACTTCCACCATCCATCGGGCAGCCTGTTGTTTCAAAT
GTTGTTTCAAATGGGACAAGTAGAGTTTTGACACGGCCAGTATACAATCA
TCAAGTCTCTCAAACCTCTCCAGTGGCAGGAATCTCAACACACCACTCTA
ATGATCTGATGAGGAATAGCTTTCCTCTTGGGGGCAATTCTGGAATTTCA
TCTCTGGCTTCCAAAGTGATACCCCGAGAAGAGGCACCTATCGAGATAAA
AGGATCTCAAGGGGGTTCAAATTATGATGTATATAGTGGGCAGCAGCAGC
GCAAATCTCAAGATTGGACCATACAGAATTCTGGATTGGCCTTCGACACA
TTACAACATGCAAATATGCGAGGAAACCTTGATGTTTCACAAGCAGCCCT
AGTTCAACAAAGCTTTTCATCTAGAGATGCAATTGAGCAGAGCAGGAATT
CTTCTGTTTTGCCATCTGTTTTACTGCAACAAGGTTATCCTTCCAGTGGC
CACAGCAGTAGCTCATCTTTTGGCAAGGGAATCTTCTCGGGAGTGGAAGA
GAATGGACACAGGAATATGCCAAACACTGGTCAGCAGCTTAATGCTTATT
TTACTGACACTTCACCAAGAGTCAAGGCTGAACTGCTTGAAGGAAATTTC
TATAATAATTTACTGCCTGACCAATATGATCAAGAAGACCTCATGTCTGC
ACTTCTAAAGCATGTAAGCTTTTCTGTCCTTCCTCGTTCAAAGTTTTAGA
ACTTCTACGTATTTCTTGATTAAAAGTTCCGTCTTGTGCTGATCTCTAAT
TTGCTCCTATGTAGCAGCAAGAAGGGATCGTAACAGTTGAAAATGATTTT
GACTTCGATGGGTATCCCTTGGATAACCTTCCTGTCTAGTTTTACTTCAG
CTCCTGCTATGCGGATGATATGCAGTTTCTGGTGGTGTATATGGGTGCAT
TGCAGCTGAATAAACTTCTGCTTTGCATCAAATAGGGGAGGTTGATTTCA
CTCCATTAACTGATTTGATAACTTGTTCAGCTTGTGTATTTCAAAGTTCA
TAGAACAGTAGATGTAAAAGTTGAGTTACTTAAAAGATGACATTCAGCTG
ATGGTGATGCACTTTCTCATGCAATTTTTTTACAACGATAGGTAGGATGA
ACTAAGAACAAGCATATTTTAGGGGTTGCTGCGGATGCAAATCTTTGACA
TGTTTCTTGATAAATCTGTGGGTGTTTGCAAACTGGAAGAATCTCTCTAA
CTGTAATAACACAATTTCAATTTAGTTTTTTTATCTTCAAGAACTTGATC
TTAATGTACAGAAATTTATTCTATTCACAGGACATGATTCTTTGTATTGT
TC