| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017362907.1, is a part of gene, LOC108195894. |
| The genetic_marker, MK006597 K4041, is located in gene, LOC108195894. |
| 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_017362907.1 | XM_017362907.1 | mRNA | DCARv2_Chr7:33404911..33411831 |
GTTTAAGGTTTTTAAAAGTTATATTTCGACCCAACCCATTATAAACGGCT
CAACCAAAAATCAACCCAATTAACCCACGGTTTGAAATGGGTCGGGTTAG
TCGGCCTAGTTCAAGGTTGGGTTGGGTTGGTTTGAACGGGTTGGACAACC
CATGAGCAGCCCTAGTATATACATACATAAAAGATTATTATCCGGCGGGC
GATTCTATCCATAAACCAAACCACCCTCACCGCATACATCTACACACACA
TATATCTCTCTGTGTGTTTCTTGAAAATCTTGAAATTTAGGCAATACAAG
TGACATATGCAAATGGGTGTGGCCAACGCTTGGGCCACTGGCCACTCTGT
TCCAGTGCCACATATAAGGCCTCCTCAATCCTGTTTGAATTCCCACAAGT
TTTTGAGCTTGAGGAAGCTTAATTACTTGTTGGGCTGGAGCTGTTCGAGT
GTTCCAAGAAACCCAAGTTGGGGAATTGGGAGCAGAGTGGTGAAGCAGCA
GGTTTTTAATTGTCGTTGCAGTGGCGATGGTAATGGTGGTGTTGGTGATA
GGAATGTTTCTACTTCGAATGTTTGTAAAGATGGGTCTTGTTTGGATTGG
GATTGGAATAGGTGGAATCGCCATTTTTCGGAAATTGAACAAGCTGAGAG
CTTTTCTTCTGTTCTTAAGGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC
TCTCCCCCTCTCTCCACTCTATTAGGTGATATTCATTTCTGTGCACATGG
TTTCTTTATTTTTTCCATAATTCTGTGTGTATCAACTTGATAAAAAGATT
AGATTTTTAAGGTGATAGGGTTTATGTTAGGTAGGTATTACCTCATGATT
TCCTTTGTATAACAGCTATTTAACTGAAAGTAAACTGTAGAGTGCTGCTA
TCGTAATGACATCTTTATTTAGGCTGGGGCAGTTGAGTACCAAGGGTAGC
ATACTAACTTTTATTTGGCCCTTTGTTGCCACAATTTGTACCAAATGCGA
ATGAGGTCTTCTCGTACGAGGCTTATTCTGAAATGATAGATTAAATATTG
GAATGAGCTTTTCCTGGTGCTAGAACTTGAATATTGATACTCTTTAACCT
TGTTGAAATTGCCATATTCTTTAGCATTATGTTCTCAGTTAATCTCTACC
AGACTTCAAAATTTGTATAAAGTTTAAATTAAACCTAGTGTGATGAGTAC
TGAGTTGGTTCGAATATAACTCAGCTTACGAGCTTGGACAAATTTGAATC
AAGTGAAACCCATATCATAAGGATATGCATCTTATCTTTTACTGCAAAGA
TATACGTTTTATTTGAATATCCATGTTAAAAAACCTAGTATACTGACTGA
ATCATTTAGTATTGAAGATACTTTTTGCTGGCCACCTGTGTTAATTTAAA
ATATCAGTGAAATGCCTAATGATATATCTTCCTGATAAATGTTTCGAAGT
CACAGGATGGGGGGACACGCTATGATATACATATACTTTATTTAGATTTG
GTCAAGTAGGATGTTGTTGCCATTTAGTTCACAGCTAAGATCCTTCCCTG
CCATTATGAGTACTGCAGAACTGAGAAGTTCCTTGTAATTCTGCTCACAC
TTTTTGAGTCGGATTTTTTTTTCATGAGAAGACTATACTTGCGGCCTCAT
TATTCTCACCGAATGCCAACTTAATATGTTTTTCAGTTTCAACTAGAAGA
TGCAATTGAGAAAGAGGACTTCCAGGAAGCTGCAAAGTTGAAAATAGCCA
TAAAAGAAGCGACATCAAAGGACAGTATTGCTGAAATTATGTCCGAGTTG
AAGGTTATTGGGATATTTGGATGTACAGTGGCACTAACTAGTTTGAAGAA
TCAATGTGTTTCCATCTTTCTCACCATATCTGATGTTTTTGTTTTTGCAG
AATGCAATAGACGAGGAGCGTTATCATGAAGCTTCGAGGTTGTGCAGAAG
TACAGGAAGTGGGCTGGTAACTCTTAGCTCCAATAGTTTTAGTGCCTTTA
TTTATTGTAATTTATCTCCTTGGGTGAGAAATAAATTCTTGATCCTTGTG
TCTTTATGTGGGTACTCTTACTTTACTTATGTTCTTTGCTTTACTATTAG
GAGCTGTAATTTAGTAACAGGTATCTTGTTTATTAGTTCATTTATTTATA
CTTCCATAATTAGGGAACTACAGTCTCTGTAGATAGCACACTAGATATCG
GTCTCTAACTATGAGCTCGTAAGATGTCAAAAATGGCTAGGTAAGGGACA
CTGTTTTACTTAAGACGAAAATTGTGACGGTCTGTTTCTAGTTAGTTTTA
GATGCACTGTTTTCAAGTAGGTGTTAAAATGGAAAGATCTGATTATGGTA
TAATTTTTTTGGTGATAAAGCAAAACATAGAGCTGCAAAAAAGTAAAACA
TGGAAGACAAATAATTGTCCCCTAAAAATCTAGTGAAACATGTTGAAGTT
GTTTAGTATGTCCAGATAAAAACATTTCATTAGTAAACTGGAGGAAAGTG
AACCTATTTGTTAATGAATATAAATGCCAAGCATACAATTTAACTTTCTC
ACGTTTTGTTTGCCGAAGGCCATGTAGTGAATCTTTTTCTTTTTTATTTG
ATTACAAAATACATCTCCTTTGTTTTGCAGGTTGGTTGGTGGGTCGGCTA
TTCAAAAGATTCTGATGATCCGTTTGGTAAACTAATACACATAACTCCTG
GTGTGGGAAGATTTGTTGGTAAAACTTTCAGTCCAAGGTAGTACAAGGAT
CTGAATATGTTTACTAGAAATTTCCACCTCTCAGTTACATATTACATGCA
AGGAACACTGGTGATCATTTTAATTCTTCTTTTGCAGACAGTTGGTAACT
GCGTCTCCTGGAACTCCGCTGTTCGAGATCTTTGTGGTCAAAGATGTTGA
AGAGACATACACTATGCAGGTGTTGCTATCTTTGTGAACCTTTTCTCTGA
AGGTCTCATGTAAATTTTTGTAGTCAATAAAGGTCTCGAGGTTTTGAAGA
CTTAGGTCTGGTATCTTATGTGAAAATTTTCTGTTGTAAGGTTGTTTTTC
TAAAGCGAATTAAAGGAAGCACTACAAAGTCCACTAGATCACCCACTTCC
AAATCCACAAAATTGCCTTCTGAAGATGATGAGGATACATCTGTAGTTGA
TGTTGAGGTAAACGAAGATAAACCAGAAAAGGGTAATGAGAAGAGTATGA
CTTTTGAGGGAGTAACCGAGGACGGTTTAAGAAGTGTGATAAATTTTTTG
AAGGATAAAATTCCTGAACTGAAAGTAAAAGTGACTTATGTAGATGAATC
AGACGATGAAGTTATAGAAGACAGTGATTCCTTGAAGCAGATTATGGAAG
AAAATGATGAAAATTCAGTGTTGGTTGAGAGTTCAGAAGATGAATCTAGC
AATTTGGATGACATTCAGCCTGACCAATTTTCTTTAGGAGGAGCTGGTAA
TGCAGTTGAAGATGAAAAAAATTTGGATATGATGAAGCTTTTTGTTGGGG
GCATTCTACACAACAAAGAGGAATCTCCCTCTAAGGATGAGTATATGCGG
GTACCAGGTGAAATAAAAGATATGGAAAGAGATTCTTTTCTGCTACATGT
TCCTGTGGGAAAACTGGGTCGTAACGATAGTGCAAATTTTCTTCCAAACG
AGGAGTTGGCAGCCATATCAGCTAAAGGCGCTTCTGATCTTATGCCTCCT
GATGTAGCGAAAGCATTCTTTGGCGCCAATAAAGTTTCTCCAAGGGTGAG
GATTAGAACTGATACTTTAACATGCCATTTTCTGGTTTTTTATGTTTCTC
TTGCTAGTGCAATCTAGAAAGCCTCTTGCTTTGCATATAAATGTCTACAG
TGAAGCAGCAATAGCCACTCTTTGCCTAATATCTGTTAGGGGTCGTTTGG
TTCGCATAAGTGGTATGAGGTTGGAGTGAGGAATTGGGTTAAGGTGCTAT
GAGCTTGAGGTATCATTTCTGATATCATGTGTTTGGTTGAGTGCTGAAAT
CGATATATTCAATTTAAAAGAAAATTAAGTCATTAATCTTAATTAATTCA
AAATATTAATAAAATTATTATTATAATAGGGTTTTGCATCATTGATTTGA
TTTTGTAGTAAACATTTAGATTTGATTGCTTAAATAGAGATACAAATATG
AGAAATAAAGTTGATTTTCATACCCCTCTCTCATACCTTGGGGCTTGGGG
GAGGGGGTGTCTGAGATATGGACTTCAAATTTCATTTTTTTTTTTACAAC
CAAAGACTAGGTATGGGTTTGGAATGGACGAAACCCATACCTGATTCCAA
AACACCCTGAACCAAACGCCCCTTAGTCCCTACGCATGTATAGTTAATGA
GGCAAAATGCATGCATCATATAACACGTTCTTATATACTCGGGCTATGTG
ATGTCCTCTGAAAAAGTCAGGAAGTAGAATTATACTTTTTGATGATTTGT
TTTCTATTTTTCTACCGGTCCGACTGTTTCCATTTGTTTCCAAATCGTGT
GTGTATTACAGTTATTAGAATACACTGAAGGTGATGACATATCATGACTT
TTTGTTTTTGGCATGCATCATATAATATTTCTCATGTAATCTGGCTGTGT
GATGCCCTCTGAAAAAGTCAGGAATTAGAATTGTACTTTTCGATGATTTT
TTTTCCTATTTTTCTATTGGTCCGACTGTTACCATTTGTTTCTGAATCGT
GTGTGTATTGTAGTTATTAAAATATACCGAAGGTGATGACATATCATGAC
TTTTTGTTTTTTGTTTCCTCATAGTTATACTGTGGACTTTCTTTAAGAAA
CCTTTTGTGATGATATAATGTCTGAATGTGCCTAAAGTGCCTTTTTGGAG
TGGCACTTGATATAGAAGGAATGTAATAAAATGCCATTGAACAACCAATT
TTTAATGTAAACAAGTCGATCTTGAACCTTTATGTCAGCATTAAGAAAAA
TGCTAAGCCAAAAATTAAACCAATTTTCAATTCACACTGCAACTGAATAA
AATCTGTTTATTTCCATTTTTCTTAGAAATAAAATTTCAGCCCTCCTTGA
ATACTTTTGATTGCGAAATTAAGTGTAGCTCTGTTATAGGTCTCTAGAGA
TGTCCGGGAAATTGTAAAGCTTGCCGCTAGCCAGGCACAGAAGAAAGAAA
AGTTATCCGAGTACACAAGTTTTAGTCGTATAAACACTTCGAATGGTGAT
TTAGATCCATTTGAAGGTAAGTTTCTTTCTCTATCCTGTTTCTAATCTTC
TTTCTGCCACGTTTACTCTGGTTGTTATAGGACTTTTACCTATTCAAATG
ACTTTTTTGAAGGTCTATATGTCGGTGCCTTTGGTCCTTATGGCACAGAG
GTGGTTCAGCTGAGGCGTAAATATGGGAACTGGAACAGTACGAGTGACAG
TGAAGAATCCTCTAACATAGATTTTTTTGAGTATGTTGAGGCAGTGAAGC
TTACTGGGGACTTGAATGTTCCTGGTGGCCAGGTCTGTAGCTCCATTTCT
TTCTCAATTTTTTTAAAATCTTGAACAGAACATATGTTATATGTAACAGC
GTCTGTATCTAAATACTGATACATCTTTGAGGTTTTTCAGGTGACATTTC
GTGTTAAAGTCGGGCAAGGGAATCGCCTATCTAATCGAGGGATGTATCCA
GATGAATTGGGAGTGGTAATTATACTTGAGATTCTCTCTCTATTTCTCTC
TCTGTAGTAAACTTATTGTGTTGTGCTGGTAAACGAGACACTTATTGTGT
TGTGCTGGTAAACGAGAGTACGAGACACTTTTGACTTGTATCATAGGTCT
TTCTCTCCTTTTCTTCACCAAGACAATGTTCACTTTGGGTGCCAGTAAGA
CATTATGACATGCACCTTACATCTAGGGAAGTGCCTTTAAGGTTTTATGC
AACAATAATGCATAATAATAAATAAAATGAAAAAATTGATGTTGATGTTT
TTAAGCGGCAGTTAATAGTACAGTCTGATGTAGTTCTCCAAAAGTCTTTT
ATTTGAAGTAGAGCATTCTGGAAAATATAGGCATGCAATAATTGCCATAT
TACCACTGTATTTTTTGATTTTTTGTTTCAAATTTTTCCCGAAGGATGAT
TGAATGAGTATAATGGCACGTCAATGTACATATGATATTAACTTTGAGAA
CAATGTACCGTTTTTCTGTACTGTAACTTAAGAATTGTACTTTTGTGAAA
TAGAACTTGTTTTGAATAAGTAATTTGTAAAATGACGAGAGTACCCACCA
ATAGATGGTCTCTCATTAAGCACATTCTATTCTGGTTTCAAATTGGAACT
TCTGTTTTACCAGGTTGCAAGTTATAAGGGGCAAGGAAGAATAGCAGATT
TTGGGTTTAAGAATCCAAAGTGGGTTGAGGGTGAACTTCTTCAACTTAAT
GGAAGGGTAAATTAACTGTTTGACATAATAATGACCGGTGCACTTATCTT
AGTTCTGATTTGAAATCTGGTTCGTAATTTACACGAGTTCTGATTGTGAC
TTTATGTAGGGAATGGGGCCATATGTCAAAGGTGCAGATCTCGGTTTCCT
TTATGTTGTACCTGAGCAGAGTTTTCTGGTACTCTTTAATCGTCTTAAAC
TGCCAGAGTGAACCACACTTTTCTTGGTCTAGTATACCTATATTCGCTCA
TACTTCTGGACCCAGTTTTACTTGTATTTTCTTCTGGTAGAGGCAAGTTT
TCGCTACTATGTACCTACAAAAGAATTTTGCTTCTATTTTTCACGTCACC
CCCTCTGTATTTTAAGCTTGCAACTCTTTAAAGCTAAATACTTAGATACT
TCTGTAAGATTAGCTGCTTGCGGAATTAATAGTTCAGAATATTAACAGCT
GTATTGATAGATTTCAATAAAGAGGAAATGTATGTGTAATTCATAATTCT
ATTCCAGCTCCTTGTGCCAA