| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017363076.1, is a part of gene, LOC108196020. |
| The genetic_marker, MK008448 7_28420483, is located in gene, LOC108196020. |
| The genetic_marker, MK003812 K1256, is located in gene, LOC108196020. |
| The mRNA, XM_017363074.1, is a part of gene, LOC108196020. |
| The mRNA, XM_017363075.1, is a part of gene, LOC108196020. |
| 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_017363075.1 | XM_017363075.1 | mRNA | DCARv2_Chr7:28420390..28429052 |
| XM_017363074.1 | XM_017363074.1 | mRNA | DCARv2_Chr7:28420390..28429052 |
| XM_017363076.1 | XM_017363076.1 | mRNA | DCARv2_Chr7:28422481..28429052 |
TCTCGCCAAAAACAAAAACAACGTTTCTTAAACCCTTCTCTCAGAGAGAG
AGAGAGTTGCAACTGAGAGAGATAGCAGTAGCCTAGCAGGTTTAATTTCT
TCCACCTCTCTTCTCCACTTGGATATACGTATACATAAGCTCTATGTATA
TTTTACACCTTCATGCTCATTTGAATATCAATCCTCTTTCCTTTTATGTT
AAACCATCTTCCCGTCTTTTTTTTGCCTCAAATTACCTAGGGTTTGTTTT
GTATATGTACATACTTCACATTATATAGCTCTGTTTTCTGTTTTTTTTAT
AATGTATGTGAATTTACAGGTATTTTAATTGATTATTCGTGTAATTGATA
GTTAAATTGGTATCACTATTTTCTTATGTTGTGTGTTTAGGATTGAGCTC
TTGTTTGATCTTTTACGATATGTTTGGGGCGTCATGGACAACTTGAATAG
ATTGTTAGTGCTAGTAAGACAATAGAATATTGGAAATAGGGTGATTTTAA
TGGTTATTCGTGTAATTGATAGTTAAATTGGTATCACTGTTTTCTTATGT
TGCGTGTTTAGGATCGATATCTTATTTGACCTTTTAAGTTATGTTTGGGG
CGTCACGGGCAACTTGAATAGATTGCTGGTGCTAGTAAGACAATCGAATA
TTGAAATAGGTTGGTTTGGCTACTTCACACTTGGGAAGCGCTTTTTGCTA
TTTAGGTAACTAAAGGAGGATAATGCATTATGTTGTGCTGAGATACTGTA
TTTGTTCGGAGAAAAGGTATTAACAAAATCACATGAATGTAGGGCAGGCC
GGCAGGGGATGTTGATTTTTTATCTGTGAATCTGTTTTGAAATTTATGCG
ATTGCGTAAGATAATCATGTCTGACATTCTGAGGTAGTAGTGCTATATGA
ATAATTCCAGTGTTTATAAGCCCATCAGCTAGTGTTGCCTTCTGTTAAAT
TAGAGGACTAGCCAGCCTATTTTTTTAAGTTCAGATCAAGTATACGTAAT
AATATAGGGCCAATTGGTAACACATCTCTCCTTGTTACCAAGGACTGAAG
GTTAAGTTTCTTTTTTTTTTCTTCCCAGAGGCCCTAGACAATATCAACTG
CTAGGTCCCAATTTTTTTTCCCTTTTCTCTTTTACATTGTGCTCAGAGAA
TCTGGTTGAAGAAAATAAGAGAAGAGAATGTGAAAGAAAAGAAAAAAGTG
GGAAGAAATTTTAGCGTATTCCCAAGTTTTTGAGCAGAAGAGAAGAGAAC
TAATAAAAAGGACATTGGTGGAATTCTTTATAGAGGAAAGTGAGATAAAA
ACAGTTAGCATTTACAATTGACAGTCTGACCCAAGTCCCAACAAATGCTA
ATATACCTAACTCTTGCCTTTCATCTACCCCACTCGTTTCCCCTTATTTA
CATCGCCATTTAACTCTTCCTTCTAAATTTAAGAAAGCGATTTCTCACTC
GGTGAGAATGGTAATAATTGCTAGCACAGGATAGTGAGCTAATACCAGGG
ACACCTCTTTTTTAGACAGGAAACACAAACATATCAAGTAAGATACTTAT
ATATATTGTCTAGAATATTGCTTTCAAAAAAGAAAGATGTAAAATCCATC
TGGATAAACATTAAACCTTTTATGGCTTTAAGGTACTGAAGAGAGAAAGT
TACAATTTTAACTTTAAGTTACTAAAAATTGATAAATAAAAGTAATATTG
ATTAGTTGTACATGTTACCTAAAATGTACCTTTCTTTTTAACTGCTGGCT
TTAAATTTTTTATTAGCTCCAAACATTGGTACTTGGTGCTTATTTGTCCG
GGCTTATTTAGCCCGACTTCTGACTTATAAGTCAAATTCAGCTTCTTTCT
ACAGTTTGTGGGAGAAAATTATAATTTAACTTCCGTTTTGTGAATTGTGA
GTTGGAATATTAGAAATTGAAAATCTTAAATTTTTGCACCAACTTATTTT
GATTTTCAAAGTTTTGCTCAATAAAAATGTATATGATCACTTTAAAAGAT
AATTTAATATTGTTACTAATTTTCTATACCTAATAAGTTGTAAATTACCA
ATGATTTATCCACCAAATCTTATCTTTTAATTTTTGTATTCGTAAATCTT
TGTTTTTGATTCTTGTCCTACAACATTTTTTTCACTAACTAAATAATATA
TTGAAGTGTCACGGGCTCATGGACATTTGAGGCTCTAATTCCTTCTGCTG
CCCTTTCCTAAGTCTAGATATGACAGTCTTGTGCTTCATGGTATAGAGAG
TTGATCAATTTGCTTTGCCGAGTATACATTACATTTGCCTATCAATTTTT
AACTATAAGGAAAAACAATGTGAAGTATGGTATGCCTACTAGCTTTGTAA
CGCAGCTTTTGTGACTACATTTTTTTTTCATCTGTGTATATATATTGATA
CCTGTGTTGGGTACTATATTGTTATGAAGACTGGGGCAAACTATAGTAAT
TTTCATTTTCACACTGCATTCTGATGCTTTTGTTTGAACTCATGAAGGTT
TGTTGTTATCAGGGGGCTATATACAAAGTCAATATTTGGTGCAAGCCAAC
TTCGAGATCCACGTATAATGGGTTTTGATCTTGGGTCTATTGACTCCTTT
GGCCTCCCTGTATCTGAGTCTCAGTGTAAAAAAAGGAAATTTGTGTTAAA
TGACACTGATGCGTCTATCGTGGGTAAGCTTCCCTGCAGTATGGATGCTT
CCTTACCTACTTTGTTGTCTTGTGATTATTTCATGGAACCTTGCTTGAGT
GAAATGGCCACTCAAGAACTCCTGAATCCTGGTTACTGCCGTCGAGTGCG
GGATTTTACTGTTGGGAGATCTGGTTATGGGCGTGTTAAGTTTACTGGGG
AGACTGATGTTAGGTGGTTAGATTTGGATCATCTAGTTAAATTTAGTAGA
CATGAACTAGTTGTATATGAGGATGAAAGTTCCAAACCTGTAGTTGGTCA
GGGCCTTAACAAGGAAGCAGAAGTAACCTTGGTGGTGCAAATACGATATA
GAAAAGATGGGCTAATAGCATTTGTGAAGAAACTGAGGCTCATCACAGAA
AGACAGGGAGCGGAGTTTATATCATTTGATCCCTCAAACGGGGAATGGAA
ATTCTTAGTTCATCATTTTAGCAGATTTGGCTTGGATGAAGATGATGAGG
AAGATATTACAATGGATGATGCTGCACCAGAAGTTGAGGAACCTCATGAG
ATTAGTGGTGGTGAAGTTTATGGAGCTGATGACAAAAATGCCATTATTGA
TCCAACTTTGCTTTCACATTCCCTTCCTTCTCACCTTGGTCTTGATCCAG
TGAAAATGAGGGACATGCGAATGATGATGTTCTCTGCTGAGGATGAGGAT
GAGTATTCTGAGGAAATGAATGGTTCAATGTCACATCAGAAGCAGTTCTT
CCATAATCAATCCAAACGGTCTCCTCTGAAACAGGCTTCTCGCAGGACGG
TCCACAGACCTAGCCCCCCTGCTATAAGAAAGACACCATTAGCTCTGCTG
GAATATAATCCTGGTAATTTTGAGTCTAGCCCACCCGGGTCCATTTTAAT
GGCCCAACAGAATAAGGGCCTATCTCTTAAGCCAACAAAACTAGACGGAT
TTAAACTGGATATGAAGCATGATTCACCGGTTACAGCAAGCCATTCTCGT
AATGTAGTTGATGCATCATTGTTCATGGGTAGGTCATTTGGGGTAGGATG
GGGTCCTAATGGCATCCTTGTTCACGCTGGTGCGCCTGTTGGGAATAGTA
ACTCGAGAGAAATATCTTCAGTTGTCAATTTAGAGAAGGTTGCTTTCGAC
AAAGTGGTTCGAGATGAAAATAACCAAGTCAGTGATGATCTTATTGATTT
CTGTTTTGATTCTCCATTGAAATTTCACATGGAACTAAAGCACGAAACAA
AAGAAATTGGTACTGGATCCTGTAAACTAAAGCTCCAGAAACTTGTCTGT
GATCCCTTGCTGCTTTCAGATACTTGCCGGGGATATATAGGGATCACAGA
AGAGCAACTAGAGGTCCCTGGGTTAACTTCCTATGCTCGTGTAATCCTAA
TGCACCAAGTACAGGTGTGGGAGTTGATAAAAGTCCTTTTTTCCTTGAAG
GAATCACGAGCGCGGTCAAATGTACTGGAAGACAGTCAGGACGACACAAT
GCAAGATAGGAAGGATAGCGATCAAGACATTGACCAAGAAGCACTAGAGT
TGATTAGGAGGGCTGAGTTCAGTTACTGGTTACAAGAGAGTGTCTGCCAT
CGTGTACAGGAAGAATTAAGCTCGTCGGATGAATCAAATGATTTACAGCA
AATATTCCTGCTTTTAACTGGGAGACAACTGGATGCTGCTGTAGAACTGT
CTGCTTCTAGAGGAGATGTTAGACTAGCATGTCTGTTAAGTCAGGCTGGT
GGGTCCACGGTAAATCGGTCGGATATTTTCAAACAGCTTGAAATATGGAG
AAATAATGGTTTGGACTTTAACTTTATTGAGACAGACAGAACAAGACTAT
TTGAGTTGCTTGCGGGTAATATTCATGGAGCTTTAGACGGCTTAAATATT
GACTGGAAAAGATTTTTAGGGTTATTGATGTGGTATAACCTTCCACCGGA
AACTTCTTTGCCAGCTATTTTTCAAACGTATCAGAAGCTTCTTAATGATG
GAATGGCACCTGATCCTGTCCCTGTTTATATTGATGAAGGAGCAGTAGAA
GAAGGTATGACAAGGGATACAGTGGAGCGGTTTGACATTGCATATTATCT
CATGCTTCTTCATGCTAGTGGAGAAAGCAAATATAGCGTTGTGAAGACCA
TGTTCAGTGCTTTTGCTTCAACAAAAGATCCACTTGACTATCATATAATA
TGGCACCAACGTGCAGTATTACAAGCATTAGGAACTTTCAATTCGAATGA
TCTTCATGTGCTTGATATGGGACTAGTTTCTCAGCTATTGTCTGTGGGAA
AATGTCACTGGGCCATTTATGTGGTGCTTCACATGCCCTATCGCGATGAT
TTTCCTAATCTGCAGGCCAGCGTTATCAGCGAAATCTTATTCCTGTATTG
TGAAACTTGGAGTTCTCAAGAATCACAAATCCAGTTTATTGAGGAATTGG
GAATTCCTCCATCATGGATGGACGAGGCTCTGGTGAGTTTAGACTCTCTT
CTACAATTTTTGGTGCCTGCTCACTGTTAATAAACGCGAGAGGCGCAGAG
GTAACCGTGGAGCCTAGGTGCTAGTTGCGCTCCTCGTCTAAGAGAGGCCC
AAGAGTTGCACTAAAGTAAAATATACTTGCATATAGATACTCAAACACGT
AAACACCATTAGTAGTAAATGAGACATGCTAACATGCTATTTTGAACCAA
AAGCTAATCCAAGGGGATAACAAATATTACGATCATGATTTACCTTGTAG
AATTAAGAAATTAATTACCTTAACTTGTAATGATTGTGATAACAAACTTT
CAAAAAGAACAATGTAAATGAGATTAAAATATACAAGGTGGACACATCGA
AAAATAAAACTAATAGTTTTCTACTCAGCCTGCTTAATATAATTTATTCT
GTGCAAGCATTTGTAGTCCTATTTCAGTGGTATATCGTTATCAGAGAAAG
TATGAACCAAAAAAATTAGGCTTGCTGGTACGTAAATATGTAAAATGCAT
GTTTGGCTGTTTGCAATACTTAAAAGCATTGATTATTTTACTATCATCCT
CAACTATTCCTTTTGGGCTTTGGGCTTTGGCCTTTTCCATCCCAAATTAA
TAAGGCATTTTTTGTACTCAAGACACCTAACTGTTTGGAGTTTGCCATTC
ATTATTTACCCACTATTACTTAAAATTTTATATTATACTGCATTGTGCTT
TTGATTGATAATTGTGTGTATATTGGGGTACTTAGATGGGGCAAATTTTG
TTCAGGCAGTTTATTCTACTTATTGTGGTGATCTGCCCAAAGCCCTTGAG
CATTTTCTGCGATGTGCAAACTGGCAAAAGGCACATTCAGTATTTGTGAC
TTCTGTTGCTCATTCTTTGTTTTTGTCAGGTAAGTATCAACTATTATTGT
GTAGTGTGCCATATTGATGATATCTACATCTTCTGACTGTTAGGATTGCA
GTGAAAATGTGCTTAGTGGATGCATGACAAGAAATCTATGCTGCATATAA
ATATTAATAATTAAATCATGTCTAAGATCTTGTTTCTCTGCAGCCAGTGC
TTCTGATATATATTGTCATTAGAAGAGACATGGAACTTTTTATTAATAAT
GAATTGCATAAAAATATAATAACAATATAAATGCTACTACTACTGTAGGT
ATCACATGAATGGGACAAAACTATTTGTCTCGTTCCTTAATTTCCGCAGC
CGCAACTTCTAATGTCCCCTTCCATACTATACTAATGTCATGTAACCTGT
TGAATGATAACATAAAGTAGTAATTTGTTATATATTATATATGCTATTTG
CAGTTTTTAGTCCTTTTTTGTCTCTGTTATATAGATGAACATTCAGAGGT
ATGGAGGCTTGCAATTTCAATGGAAGCTCACAAGTCAGAAATTGAAAATT
GGGATTTGGGAGCGGGAATATACATATCCTTTTATCAACTTAAAAGTTCC
TTGCAAGAAGACATGGATACCATGAATGAAATGGTATGACCAAACCTTTC
GAACAATTTATGGTCTTCGAATTATTATTATTTTTTGCTAAGTATCTTCG
AATTATTCAGCAACCTAGATTGACCTTATAATTTTCTTTCACTTCCTTAC
TTGAAAAGTAAAAAAAAATTACTTCCATAAAACGAGGTCTGCATTGCCAA
TCTATAATTCAGTACATATGTAGTCAGTATCAACTAACTATGACCTATTA
GGACTTCTCCAGCCTGGTAAGCACAGGAATGAATGATTATGACAAAGGAC
ACTTGGTATTGGGTACACTGATTGACTATAATCTATATGATTATTGATTA
CCAATTAAAATTTTATGTGTATTTAATTATTAATTTTAAAATTTACTTCA
AGTTCTCCATGATGAAAAGTATTTATAATGGAAACGATCAAAGTAAATTT
GTTGACATTATGTGCAATCGAAAACCAACTGTTTAGTATTCTACCTTGGA
GGGAAGACTACTGTTTTAATATATGAGAGTAGTATGTAAAGTCTTGTGAT
TATCTGGAGTAATGACAGCCTTAATTACTCGCAATAAGCAACTGAGATTA
CTGGAATAGTTAGGCTAGGCCTAGATTAAATTAAATCTACTTATTTTCTT
TTGAGATCACTTGCTCATTCAAGAAGCTTAAAGAAGCTTGTTTTTTTCTT
CTCTTGCAGGATTCTCTTGAAAGTAAAAACGAAGAATGTAGAAACTTTTT
AAGTTGCTTAAATGAGTCTTTGACAAAGTTTGGTAGCAAGTTGCCTATTG
ATGCAAGGTATATATTTGTGTGCGGCAATGATATATTTCATACTTGTAGT
ATGTTTCTTTAGATTTCAAGGTGTAGTCTCTTTTGGAGTACATTTATTGG
TATTTTGCACATATATTAATGTGTAATGATCTATAAATTTGACCTTATTT
GAAAAATTGGGGAGGGAGGGGCGAAGGTACGGGTTCCCAGTCTACAAATT
GGATCCATCAGAAATTTCAAAAACCCTGCATGATGCGTTTTATAATTAAA
AAATGATCAAGTTATATCTTTTTTTTCTTTTCTAAACTACTGGTTTACCC
ACAAAAGGTGTTGGTTGATTAAGACCGTGAAAATGAAAATCCGCGGAGAG
AGTAACAACTCTCCCGCCGAATGAACTAGTCCCGAAAATGGATGGGTGCA
GGGATCCTGGTCCATCAGAAGTATTAAAAACACTATGCAACTCATTTTAT
AATTACTTTTTTTCCAAGTCAGGTCTTTTAAGCTACGACTTGTCATTTAA
CTTCTAAACTACTGGTCTATTCTCTAGTATCATGAGTTAACCCATTTGGT
TCTTTGACTTTGTTTTAAGACCCCCTTCTTAAATAAAAGGTTCTTTTGTA
GTCCAGTTCTTCGACACTGGATTTCTTGTTTTACTTCATAGTATATAGTT
GTTGTCACTTTCTGTCATGCCAGGGCACCCTCCTATGTCTTGACTCTTCT
ATCTTTGCGCTAACAGTAACTATAGTTTATAATGTTAACCCACTACGGCA
CATAAGTATTTGTGTTTAGATTTTTTTTTTACAGCCTCTTTTAGTGTTGT
AGTATACAACTTACACAATTTTTTTCTCAGAGTCGCATATTCAAAGATGG
CTGAAGAGGTCAGCAATTTGCTTTTAGCTGATAATAGTGAAGGGGTGACA
TGTGAGATTCAGTTGAGCTGCTTCAATACCGTATTCAGTGCACCTATCCC
TGAAAACCTCCAGTCAAATCATTTGCATGATGCAGTATCAGTTTTTACGA
GTTATCTTTCTGAGGTAGCCTCATAGTCCCTACACGTGTATGTGTTCGTA
TTCTTTTATGTCTAAATTATGCAACCAGGGCGAAAAAGAAGACCTCTCTT
CTCTCAATGTGTTTATATTTTGTAGCTTCTGTATGTGTCTGTAATTGTGT
TGCAGATAACATGTATCATTTGTGATTTTCATTCCAACAGCTCTACGACA
TATGCTTTCTGTACGATTCTCTTAATTTGAGCTGGTTTATATACTTATAC
CAATTTTTTTTT