| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017387071.1, is a part of gene, LOC108214852. |
| The genetic_marker, MK005802 K3246, is located in gene, LOC108214852. |
| The mRNA, XM_017387070.1, is a part of gene, LOC108214852. |
| The mRNA, XM_017387068.1, is a part of gene, LOC108214852. |
| 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_017387071.1 | XM_017387071.1 | mRNA | DCARv2_Chr3:1259053..1266315 |
| XM_017387070.1 | XM_017387070.1 | mRNA | DCARv2_Chr3:1259053..1266315 |
| XM_017387068.1 | XM_017387068.1 | mRNA | DCARv2_Chr3:1259054..1266315 |
TAAATAATTTCATACTACCATAATAAAATTTATTTAATTTATTAATGTAC
GTAGTATTGACTTTTAGTTGATGACACCAGCATGGAAATGAACTTGTAGC
TACTGGTTCAAACCCTTGACTTGGTATTGCTTATCAAATCTCTTGTGGGT
GTTGGAATTTGATAGTTGGACTTTGTTTTGCCTTTGTTCTGGCCTTTTAG
CTTTTGTTGATTACTTCAATTCTTGATTTTCTCAGAGAGAGTGAGATTGA
GACTTGAGAGAAATACGGGAGAGAGATAATATGTTTGTCGAGAGAGATTA
AGAGAGGAGAGAGAGAGATTGAGAGAGAGGGAGAGAAATTGAGAGAGGGA
GAGATAGTGGGAGAGGGGGAGGGGGAGAGAGATTGAGAGAGAGAGAGAGA
GATTTGTTGATGTGAGCTTCTCTGAGTAATAGTACTTTCAGGGGTTCAAA
AGATATCAGTTATAGTTATATACAGGTTTATATTTAGCAGACCCAGTAAT
TACAGAGAGTAAGGTGTTGTGTTTAAGGTTGTCTAGTTGTAATACTTGAA
AATTTATTGTGGGTGTTTGCAAGAAAGTGTTATAGTTTAGTTCTATATCT
GCAAGTATTGATACTTTATGCCTTTTTTGAAAAATGTGTTTCATTCTAAG
CCATCATCTTCTACATCATCTTCGCCATCGGAGTCTCCGTTGAGTAGCAC
AAGGTCATTAGGTTCGAAAAGGAAGCTGACTAGGCAGCGGAAGCTGAGAC
ATGTGACAGAATTTGATTTGGGTTTGCAGCCTGTTGATGATAGGTCAAAG
TCTTTGCCTGTTTCGCCTAATTCAGGGTCGTTGTCGCCACCTAATTTTAG
GCATTGGCCTGTTAATGCTGTGCCTCAGCCGTTGCCACTTCCTGAATCAC
TTTCGGGGTTTAAAACAGGTGACAGTTCGCAGTCTAATGGAAGGGGTAGA
GGAGGGGAGGGTACTTCATCGAGCTTTGTGAATGCAGGGTAAATTTATAT
GATTAGTCGATTATCAATTCTATCAAGTTGAGAATGATATGTAGATGTGT
TTGATTGAATGTCTAAGATTGTTGTATGAAAGATTTGTAGTTTATATGCT
TAATTGCTTGTTGGTTAATATAATTATAAAAAGAAAAGTTTGATGAATTT
CTTAGTAATGATCGATGTTATCTGGTTGCTGATTGTTATAAGCCTCCACT
GTGTTTTGATTGGCTTAACTGTATATTATATATCTCTGACAGTACTCAAT
ATTGTATAAGTGTTTAGAGTTTCATGCCTATATTAGTATCTGATTCAGTT
AGTTTCTTGTCATAAGCCCAAGAAAAAAGTTGTACATCTTCATAAATAGC
ATTCCCTAATATATTCTTCTTTCGTGTTTCTTTGAGATAAAGTATATATC
AGTGTACTACGTAATTAGTAAGAAAGTTATTGATAACATCTTTTTTTATG
AAATCATCAGGCAGAGTCCAAATCATGTTGCCAGGAAATCACCTACAGTT
CCAACCTATCATCGGAGAGGATTCCGTCAAGAAAATGCTAGTGATGCGCA
AAGCTTCAGGCTAAATGTTCCCGCTAGGAGTGCTCCAACTAGTGGCTTCT
CAAGTCCTGCTGTTAGCCCACAAAGGTTCCACTCGGTAAATTTTCTCCAT
TCTTCATATGATCTTCCTCGTGAATCCAAGAGTTCAAATGATGGGAATGC
AGTATCTACTTCCCATGTGTTGCCGGAAAGGATTACAGCCAGTCCTGACC
ATTCTCCTCTTCATAGTCCAATATTACTAAGTCCCCACCGTGGTACCAGG
AATCCTTCTGGTATTGCACGCCATTCAATATATAAGTCTCTACCTGAAAG
TCCTGTGGCATGGCCTGAAGGTAATAATTCCATCGTCCACCCTTTACCCC
TTCCACCTGGAGCCCCGGTGCCTTCACATTCACCTTCACCTTCACATTCA
CTTAAACCTTCTCACACAACAAATGGATCCTCAACGAAAGGTCAATGGCA
AAAAGAAAAACTCATTGGACGTGGTACATATGGGAGCGTTTATATTGCAA
TTAATCGGTAAGATACAAAATTGCATCTTCCTTGCCATTGTTTCGCTGTA
GTTCATGTCATATATATCAAAGGGCATAGTGTAATGTCTCGCTGTTTTTA
TTGTTTCCTGTTATAGTAATGATGGAGCTATGTGCGCAATGAAAGAAGTT
GATGTTATTTCTAATGACTCTAAATCTGCTGAATGTATAAAACAGCTGGA
GCAGGTTGTACTCTAAATCTTTGTCTTTACTGTTCCGAATTTAAATTATA
CTTTAAACTTGCAACATAACTTCAAGATCGAAGTTGTACTAGTTAGGGGA
CTGAGCATGAAGTTATCTAATGTCAGAAGTCTACTTGGTATAGATCAACA
TAAGAGGCATTTTGTTTTGTTTACTGGTGTCAACCCTTTTTTTATAAATT
TTTTGTGGGAAGTTTTCCCAAATTTTGCAAGTTTCTTGTTTTCCATCTGG
TTTTATATTACATTTAATATTTGTAGTTCCACAACCCGACCGATGTTCCA
AAAACATAAGTAAAAGTTAATTCTAAATTATCTACTTATATTACTTTTAA
CCTTGGACTCTATCAGAAGCTTCCATGACTTGTTAGTTGTTATCTTCAAT
ATTGCTGGACTTAATTCTCCGAGACACTTCTCCAATGTGATTCTTGTAGA
ACACAAATTTTGTATTGGAGATGCATTAGAACTAATGACTTTCTGATTTT
ATTTTTTTTGTTATGGAAATCTGTCAACTGCTTCTCGAACTTTCACAGCA
TCATGTTATTCTATCTCCTTGCTGTGTACCAGGAAATCAAAGTTCTTCAG
CAATTGGATCATCCAAACATTGTACAATATCTCGGTAGCGAGATAGTAAG
TATATTTTTGGTTTTATGTTACCTTGTGTTTTTTTGATGTTGCTGCTTAT
GGATGTCTAACAAATTCCAAAGATAATGAACTTATTTATCTTCTGCAGAT
TGAGGATCGCTTTTGCATATATTTAGAGTATGTTCATCCGGGATCAGTAA
ATAACTATGTCCGTGAGCACTGTGGATCCATAACTGAATCTGTAGTTCGC
AGTTTTACCCGCCATATTCTATCAGGGCTGGCTTATTTACATAGCACAAA
TACCATTCACAGGTGAAGACTTCTCTTAGTTACTTAATTATCATTGACCG
CTTAGTTTACCGTGACATATATGTAGCTTTTTTTTTTTTTTTCATTGATA
CACATTGGAGAATAGGCAATAGAGATTTAAAAAGAGGTATGACTTCTAGA
TATAATAAATAGATTGCTTCTGGCCTTCAGCTCACTGTATTCCTTGACTA
GGACAAGAAGGCTGTCAAAAACATGCTGATGCTGATCCACTGAGTGTTAT
TGCGTGGTTGATGATACTTGTTGTATAGAGGCTGTATCAACTCAATTTGC
TTGTTATGTTACAGGGACATTAAAGGGGCAAATTTACTTGTCAATGCCTC
AGGTGTTGTCAAGCTTGCGGACTTTGGGCTGGCAAAACATGTAAGATATA
ACATTCTTTAGCCTCCTAACATGGCGTTTGTTATGTTTTTTCATCTTAAA
CCGTATACTTATATTATAGATTATTAGATCTTGATCTGTTTTCAACCATT
CTATATAATTCAGAATCTTCTACCTTAGTTGTAGGACTGGAAACTTTGGT
GTAATATATGTGTCATTAAGTTGTTCATCTTATTATAAGCATAAAATTTT
CCTTCAAATCTCAAATGTGTAGTTGAAAATATTTGTGGTGAAATAAGTCG
AGCAAAAATATTGAATTATCTCAAAACAAAATTTTAAAAATTATCAAACA
AAGAAATAAATGTAACACCAAAAAACTAGCAATACGAAACTGATTCTACC
CTAGTAATCAATTGAACCTGGAGAATGTGTGTGTGGGTTTAGCAATTAAC
ATGAACCCAGACTGTGTATGACTTATATATGGAAGGGCCTATATGGATTT
TCTGTAAGGCATTATTATTTCTTTTCATTTTGTGTAATAATTTTTTTGGT
TCAACTGTGCATTTTTTGGTTGTACTCTTTCTTTTCTCTTACGTACATGG
TTGGTTCTTTTCAGCTTACGAAATATGCAGTCGATCTCTCTTTGAAGGGA
AGTCCATATTGGATGGCTCCAGAGGTACCTACAATTATGCTTGTGATAAA
AAGTCGGCTTTGCTTGTTGTCAAATGTGTTCTCATATATTTTGCCCCAGG
TATTGCAGTCTATGATGCGAAAAGATTCAAACCCAGAGCTTGCCTTTGCT
GTTGACATATGGAGTGTAGGTTGTACCGTTATTGAGATGCTGACTGGAAA
ACCACCATGGAGTGAATATAATGGGGTAAGCATCATGCAGCTGCATATGT
TACTACTTTTAATAAGTCTAGCAAAACTCTTAATGTCTTATTTATAAAAT
AGTCAACAGTTAGGTTGTTGGTTCATGGTATTTACTCTTGTAAATCATTA
TTTCTTATGGTTTCTTTGTCTTACTTCCATCAATTTTTTTTATCTTTTTG
GTGGGCAGAAATACGTGTAAAAATTTGTGTTTCTAATGGAATACTGGCTG
TTACAAAGCAAATGAACCAAGACCATTTGTTTAAGCAAATCCACAAAGTC
GCGGGAGAATAGTTATAATTCTAGCTGTGAGAGGAGGATAGCGATTGAAA
AGTTAAGGAATTTTTTTGACCGGGGGGTTAATAGTTCAAGAATTCAAGTA
TGTGAACTATAGAGAAAAAACGATGCATCTATTGTTGTTATAAGTTCTAA
ATAAGAATTAGTAATAGACATAAATGTTAGTTTCAATGTAGATATTTTGT
TGATAATTTTTTAAAAATATTTTAGCAAGGTAAAAATGTTTGCATGGTCC
ATTAGATATAATAGATTATAAGGTTTAGAGTCGTATGCATTTGATTCGAT
CCACCACACGCTCGAACCTAAATTATATTATCATAAATTTCTATCAAATA
TAACTTTTTTTTATTGTACGTTTGTGATCCAAATATTTTCTCCTCCGCAT
GCAGAATATACTAGGCGGTTTCACTTCTGCGGTTGAATAACCCTAGTTAT
ATTTTATATATGTAATTTTCCTTTAAGTTTTTATGTGACGTGTAATAATG
TCAGTTGATTATACAAAACTAAACATAGCATTGCACCTCCTGGAGGTATC
TTACGAAAACAGCCATGGTTGCCCTTCTGCTTATAATTTTATGCACTCAA
AGATCACTCAGCTTCATACCTCTGCCAAATCATCTTAGTAAACAGTTGAG
ATTGATTTAAGAGTATATCCATCATAATATATGTTAAAAGTACAAATATT
TTTACTTGTTAATTTTTAAAAACATGACTTGCGGCCTGTTTTAGTAATAA
GAAGCATGATTAGTTTAACTAGACACGCTAGATATTACAGTGAAATGTCA
AATTTGTGTTTTACGAATCGGGCCTTTTTTGTTCAACATGTAGGAATGTT
GAAGATATGTAATAGACAGATTTTTTTTAAAGTTTTCTGCCTTGTGAAGT
TGTTTAATTGTGCCTATGTGTTAGGTACAAGCTCTGTTCAATGTCTTGAA
CAGATCCCCGTCCATCCCAGAAACCTTATCTGCAGAAGGAAAGGATTTCC
TCAGAAAGTGCTTTCAGAGAGATCCAGCAGATAGACCAACTGCTGCTGCG
TTACTTGACCATCCATTCGTAAGAAATAAACAAGATCAAGTCTCAAGTTG
CAGACGCGAATTTTCTGGTCTTAAATTGCATGTAAGTCTTCAGACGCCAT
TAGTGGTCTCAATACATTTGTTTCATCTTTATGTTGTGTTTGGTTGGGGT
GAATGAAAATGGAGGGAATGGAATGAGATTTGAACTAGTTGAATGTATAA
TAATTTCATTTCTTCTACCATTCCATTCCTATCGCCCTTAACTAGAGCTC
AAACCCTCCATTGTGAAGAAATGCTCCATTCCTTATCACACCTATCTTCT
AACCCAAATCTTATTATACAAAATTTGCACTTACTCATTTTTCTCAAAGT
CCTCCCTTCTACACTCTATTATTTTCTTTTATTTATACTCATTCCATTCC
ATTGACCCCAACCAAACACAACATTATAGTTTTGCAAAGACTTGAATGAT
ATATATTAATTGTATCTAGTCATTTAAATCTTAATTTTTTTTGTTCTACA
ATATTTGTAAATATCCGACAACCTGCCGATTATATTCTACAACATAAACA
TTTAATGAAAAGAAAGAACAGTTACTTTTATAAATCGTAGGACATTATGT
TCTGCAATATAACTTATAAGCAGAACAATAATATTAATGCTTGTTAAAGT
TGAAAGATATCAATGATTAATTGATAATTATGTTTAATACTACTTATAAA
TGATAAATTATATATAAATTTGGATAATCAAAGATATTATTTATGATTAA
ACTAAAAAATTATGATTTGTACTCCAATCCTCCAATGTTTTTATGTACTC
CATAGAACTTAACCCATATATATTTATTATATAATACATGTAATTGTTTT
TATTTCAGGATGCATCGATGTCCTTAATTAATAAAAACAGACAAAATTTG
AGGTCTGTATCACCATGTAATTGGACTCAAAAGGGAAAAGCTCCTAGTAA
TGGGTAGGTTTTACTTTTTACCCTGGCTTTTTTTATGCAAGAATCTTTGT
AACAATGTTTTTTGTATGGTTGCCGGCTATGTCTTGATTTAGTACAAATT
TTTCTGTTATAGCGTTGCTCGTGCAGTATCTTATCCTGAATCTCCAGACC
ATTTTGGTACATCCTCAACAGATTTCAGGGAGCATTTGCAAACTAAGCCT
TCAAATACTTCTAGCAGTTGGTCACGCAAGAGCCGGAAAGTACAACAATC
ACCTCACCACTAGGACTCCTGGAAGGGAAATCCAGTGTTCGAAAGATCAC
AGAAGGATTATAAGTAGAGATCATAATTTCATGTATAGTGTAGTGACATA
GAGAATCGACTTTTTTGTTTTTAACCTGAGATGTTCTTCGTAACCATTAG
AGAGTAGTTTTATGGTCTGTGCTACCTTTCTCAAGGAGCAATACTTTGGA
TTGTGATCTTGGGTTTGTGTTGTGAGCTTGCTATATAGGAATGCAGCTTC
GTGAAACAATGTAAATATTAGTCAAGATGTCTTCAAATTAGAAATAAAAG
GCAGATGCTAAATAGACTCATTTCTTTTGTTAGAATGAATGAGAAGAATC
GGGTTTCTTTTA