| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017387538.1, is a part of gene, LOC108215163. |
| The genetic_marker, MK005268 K2712, is located in gene, LOC108215163. |
| 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_017387538.1 | XM_017387538.1 | mRNA | DCARv2_Chr3:3948523..3956908 |
ACACCCCTTAGGCGCGTGACTCATCATTTCACACACATTTATATATGACC
TAAACCCCTCTCTTTTCGAATTTTTGCGGAGATCAATTCCAATCCTTGCT
CTTCTTGTAAGCATAAAGATTTGATTCTTGCACCTTTTTGGCTCTAATTG
CATCGGTTTGTGTCGAGATTCGATTCGAATTTGTGATTGAGATTTGAATC
TTGGAGCTTGTGGATCTTTGTGATGGAAGAATCGGGTCAACAGGGTCCGG
ATCGGGTCGTGCCCGTGTCGAATTCCACCTCACCGGTTGCTGGTATGTGT
ATGTGTATACATGTTATAAAGATTAATTGTTTTAGTTAAGTCTTGATTTT
TATAGTTTTCAATTTGATTGTGTGATTTTTTTGGTGATTTAAGTGAATTT
GGGATTTAGGGTTTTTGAGAATTGGGGTTGTGGGATATGTGGAAATGTGT
GTGGGTTTTGTTGGTTATGATTTATGAGTTTGCGGGTATTGGTTTTCGAG
CTGTTGTGTAATTGTTATTAGTGCAGAGAATGATGTTAAGCTATCGGAGA
TGGTATAAGTTAGTTTGGTAGTTTTTATACTGTGATTCCTATTTGGCCCG
CCTCCAGTATGGTGTTAAGAGTGAGATTCTGGGGTTATTGGGATATATCG
AAATGTGTTCGTGGTTTGTTGATTACGCTATTTGTATGTGAGTCGTAGTT
GAATTTTGTGATTCCGTATACTGTACTGTGTTTTGTCTTTGGACGGCTTC
AATTTGATGGTATGTGTGTTTGTGTGTGTTAGGATTTTAGATTTTAAGTA
TTTGCATGAAGAGGTGTAAGGATCTGAACCCATGAACTTGTCCTTTTTTA
TACCTATATAATTGCTTAATTTAACTGCACCTATGAGGTTTGGTGAGAAG
TATTGTAGTGTTCATTAGTCCATTGTGTTGTACAATGTGTAAGTAGTTTT
CAAGTTCGAATGGCTTATTATTTGTTCCTTCAGTTTCTGTATGTTTAGTT
GTCTAGCAAATGATTATGATCACAACCATCGTAGCTTTGATCTGGGTTCT
ACTTGTCTCTTCCTTTGCCTACATCAAATAAGCAGAATTATATGCTGCAC
TTATCAGTTCCAATTAATCTAATAAGATAATATGATCAGCTGGTATTTAA
CAAGTGAGTTGCTTCTGGATTGAAATTATTATCGCTCAATGCTGTAGTAG
CTTATAGGCAACTATGTCAAGACAAGTGTAATAGGGGTAGCATTTCTATG
GTTGGAGTCAGCTGAATAATATATTATGTAGGTGGATCAGATAGTCACAC
TTTTAGTTGTTGAAAGAATATTTTCAAAGACATAGTTATTCCTCTCAGTT
ATGATTTCATTTAGAAATTTGACTTTATTTTGGTGGTATCCAAATTGGTT
CTCTGCTTTTATAGCTTTTAATGAGTACTCAGTGACCTATCTTTTAGTGT
TTTTTTTTGGCAAACTGACCAATCTGTTGATTGATGCAGTTGAGAGTCAT
TTTAGTCCTGATAACCGGATTGAACAGGTAATTAAGATGCACACCTGCAT
CTTCTTTTCACTTGTATAGTTTTATCTGAAATGTTTATTGTTCCTTATTG
ATACTTCTAAGTTTTTGCTGTCAGATATTGCAACCTAAAGAGGATAAGGT
TGTATCAGCGAGTTCTCTAAATACCACCATTGCTGGGCCGCCAAGCATTA
TAACAGGCCCGCCAGAAATCTTGGCTTCAAGTGGAGCACTTGCCACATCC
TACCAGCCCAATGCATATGCTCCGCTAGAACAAAGTTTCTACTATGGAGG
TTATATATCTAGTCAGTCCGCATTATGCTTTAAACAAAATGAGTGGATAA
ATCCCAACCACTTGTAATTACTTGATAATTTGCCCTAGAAATTCTATTAG
GTATTTATTCAAAGTTCTATGGAAAAGAAAGAGTCAGATAGGAGTTATAT
CGTATTGTGACCTTTGTCTGACTGCAATCTAAATGGAAAGGTTGTCGAGA
TTGGTAGTACTAGGGGCTTGATATGCTGCTCTATGTATCATCTTTTAAGC
AGTAGTGATTAAATTGTTGTGAAAACGAGCAACTATTGGTGTATTAGCTG
ACATACAAAAAAGAGTTCCGATCATAATACCATATGTTGATCAAATGTTT
GCATCGATATTTGATGACTTCCATTAATTTCTTCCTGCTACCTTTAGTTT
TAAAAAATGACCTGGTTTGAGATTTGAAGTAGTTGGAGGGTGGTTGTGTG
AGTGAGTAGTGCCATGTGTGGTTATTTTGAGTAACAGAATGAGCATATGA
AGGTGGTGATGAATTTTGTGTTGCAAGTAAATGCAATTTGTTCAAGATGT
TTTTGTGGAAGGAGAGTCGGCTTCGAAGGGTTTCTGATTTAATTGAGCTG
GCTTGGTTAGCAACCATTGAGTACTAATTTTGACAGCTTTAAAAATTTTA
TGCCAACGCAGAACTTTCTTGTGTTTGATGATTTCTCCTAATGTCTAATA
GGCATGCTGACTTGAAACTAACTTCTTCGACTATATGTAGCTAAATTGGC
ATTGGATTTAGTTTACTCTCCTGCTAGTTTAGTTAGCAATTCCTGGCATG
CCATTCTCATATTGCTTTTGGTTGATGTATTGCTTACCTAACTAAATTTC
TCTTTGATCTTATTACTCATCTCCTTTCTTTGTTCATGCTTCAGGTTACG
AGAACAATGCTGGTAACTGGGGGGAGTATCCTAACTATGTTAATGCAAAC
AACTTGCAGATAATACCTCCAGTGAGTAAAGCTTGTTTCAAACAATATAA
TTTATTTATTTTTAAGTTTATTGCCTTTGGATTAACTCACTAGATGTTCT
TATGATCAATCATAGGCTATGTTCAACGATAATTCCTCACTCTTTTATCC
TTCCGGCTATAGCTTTGATACACAAATGGCCTATGGCCAGTTTCCTCCTC
TGGCCAGCCCAATGTCCCCATTTTTGGTTGATGGTCAGCTGTACTCACCA
CATCAAATACCCATGTCGCCGAATTTTTATCCGCAGTCAATCTCTCCTGG
ACTGCCCCATGTCGGATCATCTCATTCAATGTCTCAAACTGAGATGGCGA
CCCCAGTAAGTACAGGTCAAGACAGTGTTAATGATAATATGCTTCTTGGA
CCAGGATCTGGTTATTACTTGCATTTTGGATCATTTCCTGCTAGTAGTGC
ACCTGCAAACAGTAGCCTTGGCTTGTACAAGTATCCAGGAGAGTTTGGAT
CTGGTGAAAATCCACTAATTCGATCGAATTCCAACGACACGGGTAACATT
TTGTCTCCGTTGACCCCAGGAGCAGTTTACACCCAGCCTGTTGGCATACT
TGGATCATATGACCACAGCCTGGCACAGGTTCGTCCTCTAAATAGGAAAT
TTTCTGTTACAGTAATCTGAACCATGAGAATATTGTTATTAAAAATATGT
TATTGCTTCTAGATGTACTCTTTTTTTGTCTTATATTTCAGTGACCAAAG
TTATTGTGTTGATGTTATATAGCACTATTATGATTGTTACCATCACCACA
TTTATGTTAAAATCAATATTTAGGTGCTCTCGTAAAAGCTCGTAATTTTT
AAGAATCAAAATTGGAAGCTTATAATTTTTTAAGAATCAGAATTGTGAAG
ACAGAGAAAACAACTAAATAAATATATAATAATAAATATATGATGACAAT
GAAAATAAAATCATACTGACATATACTATATCTTCATTGGTTTCTCCCTT
CTGCATTTTTGTTTTTTCCTATGTAGAAGTACCCCTCTATTAGGATACAC
CCAAATGTAAACCTATAAGACTATACTTTGAGTTAAACGTTAAAACTGCT
GTCAATAACATCATGTTTGAGGGAACTCTTTGGTTCTTTGATACACACTT
TAAGTATTCCTTGGGCAATGGTTTCTGACTACAAGTTAATTGCAATACTG
ATTTTATGTACATGGGTTCTTGATGTGTTGCTTGTTATTTTATTGGTCAC
TTCCATGCTTTATTATGACTTGTTTTCCTCTTTCTTCATGAAGTCGAGTT
TGATATTTACACTACATATTAAAAGAAAGGTTGGATATTTACACCACGAA
CCTCCTTTCTATTACCCATTTGCAGGGTGGAAGTATGCAGTTAATCATTT
ATCTTTGCAGTTTGACAAGTTTGTCTTTGCAATATCTTCCCTGATCTTGA
ATCAATACTAAACTGCAGATTATACTGTTAGAAAAACTCTTGGTTTCTCA
TTACTAGTATGACCCGTCCAAGACAGGAAAAAAAAAATTGCACATGTTTT
TGGGGTACACTTCACTTGAACTATATTTGAACTTGTTAGAGTACAACTCC
TTAAATCATTAGCTGGGGACTGGAGAGTTCTATAATAAAAATTGAGTCTA
TTAATTAAATTGAGAAAAGAAATATATCATATGTTTTATAATCAAGACCA
ATAAAGTTTATTATTATTAAGTTCTATAAGCAGTCGAGTATTAATTTATT
AAAGTTTAACACAGTTTATGTATGGTAATTTGAATGATTTTTTTTTTATA
TGGAACTTGTTACATGAAAAATGTGTCTAAATATATATGATATTTTGCAG
GCTTCTCAGCAGCAAATACCATTTACAAGGCGCTATCATAATAGTACATC
TTCTAGAATGTCAAACTATGGGAACTGGGATGCTAGTCGCTCCAACCGAT
TCACTCCTGATAAAGGTGGAAGAAGGGATAGGGACTCAATCAGTATTTCT
GCTGATTCACATGGCAATGCCAACGACCGTAATCGAGGTCCAAGAGCATT
GAAGCCAAAAATAAAAACTAGTACTGAAGAAAAGGCTGCACCTGGTGTTG
CAAAAGCAGGCGCATCGACTTCTGGAGTCAATCTTGATCTATACAACCAA
CCAGATTTTGTCACAGACTATGAGCGAGCCAAGTTCTTTGTCATCAAGTC
TTTTAGTGAAGACAATGTTCACAAAAGTATTAAATATTGTGTTTGGGCCA
GCACACCCCTTGGGAACAGGAAACTGGATGCTGCCTTTCAAGAAGCTAAG
GATTCTAATAGCATATACCCCGTTTTTCTCTTCTTCTCGGTATGCTACTT
ACTTTTTTTAAATCAGATTTATTAGGTATTATCTTGATTGAATATAAATC
ATAATTTGTATAATCACTTAATAAAATTATAAAATATGGGTATGTGGATA
TACATGGTGGTTCATCAGTTCTGCTCATCAGAAATCTGATTAAAAGCAAC
ACCGACTACGGATCCTGGGGATTGCCTAGTTGTATTTGTGAACTTGCACA
TATTTACAAACCAACCTGCAGTTGTTTGGATCTAATTTGACTAAACACTC
CCTATCAAAGTTTTGTAGTGTGAATCATTATTTGTTTGGTAAGTGTAATG
TGATAATATTTTGCCTTACCGTATGCTAGAATAAAACAGTGTGTGGTGAA
TGGTGATTCAAATTTCATATATAGGTTTCTCATATTGATCTTTGATTGGA
CTTAGAAATGAATAATCTTCAACTAAGATCTGTAGTGATTATGTTATTGC
AGTACTCTCTGTTCTATAAAGAGGCCATATCTATCGTTAGAGAAGTTAGA
AACTCTTAAATGTAGGTTGTGTCATGGATTAGGATCCAAAACACTTTTCT
CTTCTCTCAGTGGTTGCGCTTAATCTGTTATACTGAATCGGGTTTCTCAA
CTTTGCTTTCCTACATCAGAATGTTTATATTATTTTGGAACATAAGTATA
CTGGATGTGGTAAATATCAATTTGTGTTAAGCTCTTATGTGGGTTGTACA
GTTTAAAGACTACTGCATAATTGGCAGGCTATTAACTCTTACATTTAGGT
GTTTGTGGAACAATCGCTTATGTATGTTTTTTAAGTATTTGAATAAATCG
TCTATATTTAAGCAAGATCTATATTTCTTGTTTAATAGTATTTCCATATG
ACTTATTTAAACAGGGCATTTATTAATTGTTTACTTCATTTCTTATTAAT
TAAGGAATTCATACTGTTGAAAGATGATAATCAATCGGATAAATAGTTAT
CTGCAAGACAGGAGTGTACTCGATGCAAGTCGTTATATTTAAATACCTAG
GAAGAAGCTGAATACTTGACTCGTTGTTAAAAAGATAGGCAAATGAATTT
TGTTTGATGAAGAGTTGCAATGTATGAAAATTAGATATTGCACCAATTTC
TCTATCTGTATATGTTTGCATTTATTTATGTTCGTGGTTCACTTTGTTCT
AAGCCACATTTTTAATCACTATTTATACACTTTGCAGGTTAATGCTAGCG
GGCAGTTCTGTGGTGTGGCTGAAATGACTGGCCCTGTCGATTTTGAGAAT
GATGCAGATTACTGGCAGCAGGATAGATGGAGTGGGCAATTTCCTGTCAA
GTGGCATATAATAAAAGATATACCAAATGGTCGATTTCGCCATATTCTTC
TGGACAACAATGAAAATAAGCCCGTCACTCACAGCCGAGACTCTCAGGAG
GTACGTACCAGTTAAAGTTTTGTTTACACTTTACAGTTACTCTTTGTTCT
TACAAGTCTATTTCTTTTTATCGTCAACTGTTATTACCTGGGGGGAAATT
GAGAAAAACAAAAGGATGTGTAGCAGTTTTTTAAGATTTGTTGGTCGGTT
CAATGTGTTGGCATTTCTCATTTAATCTTTTCAAGACCATGTGTTTCTTA
TATTCTCAAATCTCACCCCTACACACATCTCTTCCTTATAGCTACCTGTA
CTTTTAGGTGGCGAGCCACCTTAAGGGGCTCTGAGTCAGTTGATTTGGAC
TTTGGTAGTAAGGTGTATTATTTTCCTAGATAGTTTATGGCTTTATACTG
TTTTCATTAGCTTTTGAGATACACTTGCCAGTCCGATTGCTGATTTAGCC
TTTTTATTCACCAGACTTTTCTACTGCTACCATACTTGTTGAAAAGCCCT
ATCTAAGGATTCGAATTATTCTACAGCAAAGCGAAATATTGTTCACTTTA
TTAAGTTAAAATTACCTGTTTGGGCATCTTTGTCCACCATACCTACAATA
TGATGATTTCAACACTCCGTGTTACACTATTACTAGAGTCAAAGTTTTAC
TCTGTAATTCTATCCATATGTATTGAAGTCCACCTTTTTAAATTTGAATA
TCCCATAGTTTGGTAATTATATATAAACAGTGCCCGTTTGGATACTTAAA
ATAATGACTTACGACTTGAAGTGTTTTAAAGTGACAAGTCCAAGGTAAAA
ATTGTTTGTTTGGGTAATTTTGCATTATGACAAGTGATAACTTAGTAATA
AAAAATAAATTTGATAGCTTATCTATTTGAATGGTAATATTGACTTTTAT
CATTTAAAAATATAAAATTAAAATAATTTGTTCAAGAAGTACCTCTTACT
AACTTCTGGCTTTAAGCCAGTTTCTAGCTTATTTTTAACTTTAAGTCAGT
TTCTGACTTGTTACAATGTACCATTCCATTAAATCTTTTAGGTCCTGACT
TCACCAAACAGACACTTTTTAACTTCCAAGTCAATAATGACTTTAAGCTC
AAACAAACAAGCTGAGGTTATATCATCTGTTCTGTTTCGATTTTTGACCT
CTGTTTATTGTCAGAATTTGGCCTTTTCACTTTGATTGAGCTGATCTTGC
AACATTTGTTACGACACAAACATGATATTTCTTCGTAATTTTGTTCAGGT
GAAGCTTGAACAAGGTCTTGCGATGTTAAAAATATTCAAAGAGCATGAAG
CTGATACATCAATGTTGGATGATTTTGTTTATTATGATGAGAAGGAGCGT
TCGTTGCAGGAAAAGAGAGCTAAACAGTCAAGTCCGGGCAAAATACCTGA
TGCTTCAATAACTCAATTATCTGAGAACCTGGCTGGTACCCTTCATCTGA
AAGTCATTGAAGACAAACAAAAGTAATTTGTGGAGGCGAAGCCAAATTAA
TAGGTGGAATTGATGTAAGCTGGGTTTTGGCCATTTAGGGATAGAAATAC
TAAGCAGCCAAATGTTGCTACTTTAAGCAAAGAAAGCAATGAGAGGGAGT
ATTCTGCTTTTGTATTTTCTGGTCAATTAAGTTCATCTGTACACTAAGTT
TCTCTATCTTTCACCTTCACCTTAGTTTCTTTTTCTTTTTTACTATTAAT
GAGCATTACCCCGGCTATCTGGGTATTCTTGGCTAAAGATTTGGGAGGAA
AAGTAGGTACACAGTTAGACACCATCAAGTTGGCTTGATTCTGTACAAGC
ATGATATTGAGGTGTTTGTAAGTTTATTTTATATATATGAATTCCAGTGC
AGGGCATTAAAATTTGTGCTGCTGCATAAAACTCAAAAGTATCAGAGAGA
TTCCCATCTTTGATTAAGAGAGCTTCAGTTTTCAA