| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017384092.1, is a part of gene, LOC108212345. |
| The genetic_marker, MK008029 1_50485622, is located in gene, LOC108212345. |
| The genetic_marker, MK004671 K2115, is located in gene, LOC108212345. |
| 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_017384092.1 | XM_017384092.1 | mRNA | DCARv2_Chr1:50480345..50489917 |
TAGGCCAAACCTAAAATGACTAGTCACATCTTCGTTTGTTAACACTCCAA
ACACCTGCAAAACCCTAAACCCTAAAACAATGGCAGCAGCGAAATCGTCG
GTAGATATCGAAGTCGAAGACAGAGAACAAGCCGACGAGACTTCGAAGAG
CTTCGAAGAGCTCGGGGTCGACGCTCGTCTCATTCGCGCTCTTTCGAAGA
AAGGCGTGAACAAGCCGACTCCAATCCAATGCTCCGCCGTCCCGTTAATC
CTAGTAAATCTCAATTTCTACTTCGATTTTATCCAATTATATGAATTTGT
ACACGCGGCACTGTTTTTTCCTTGTTTTCTGATTTCGCATCTAAAAATGT
CGAAAAATATCGCAGAATTGATGTGTTTGTTGCAATCCAACTCTCATTGT
ACACGTGGCACTTTTTTTTTGGTTTTGTATGAAATATATCGATCCAGGAA
TTTATGTGTTTGTTGCAATTCAACCATCCTTTCAAAGGATTATATGCGTT
CTGTGCACGTGTCACTGTTTCTTACTCTTTTTTAGGTTTCGTATTGAAAA
TTATTCAAAATGTTAAAGGATTGGCGTGTTTGTTGGTTTAGGAAGGGAAG
GATGTGGTGACTCGAGCTCATACTGGTTCAGGGAAGACGTTTGCGTATTT
GCTACCTGTTCTGCAGAAGCTGTTTTCGGAGGTTTCGGAGCAGAAGAAGG
CTGCGCCGGCTGTGTTTATTGTTGTTCCGACTCGGGAGCTCTGTCAACAA
GTAATGATTGAAATTGCTTGGTTTTGATGTGATTTTGTTGTGTTTGGGTT
TAGAAAATGAGGTAATTTTGGTTTTGTGAATGTAGGTGTATAATGAGGCC
ATGTCGTTGATTGAGTTGTGTAGAGTTCAACTTAAGGTTGTTCAATTTAC
TACGGATGCGCAGATTAATGACTTGGTACTTTTCCATTTTGTGATATTTG
ATGGTAAAAAGTTTTGCAAAAAACTGTGTGCATGTTTAGAAGTTTAGTGA
TATTCGGTTTTTGGTGGCAGAAAGTAGCATTGGCAGGGCGGCCTGATATT
CTTGTGTCTACTCCTGGAGGTATACTTAAATGCTTGAAATTAGGGGTGCT
TCAAGGAAAACAGATTCAAGATTCACTTTCTGTTCTTGTTCTAGATGAGG
TAACATCTTCTTGTTGGTATTAGCAATCAGTTTATGTGTAGCACCTCATG
CGTAGTGGGTAATTTTATACATGGATTGGTGGGAATACAGGATGATTATG
TACAAACAAGTTTAACTAGTTGTATATCTTATCAGGCTGATCTTCTGCTT
TCATTTGGGCATGGGAATGATTTGAAAGCTCTAACTGTTCACATACCTCG
CCAATGTCAATGCCTTCTTATGTCTGCTACTATAAGGTGTGTTTCTGTGG
TTTATGTGTAATCTCAGCGTCTAATTTTATGCCATGCACCTCAAATTGTT
GTATCCATAACTTTCTGAAACTTCAATGAACCTCAAGCACAAAATTGACA
ATTTTTTAGGGCTCTGGTTAACGTAAATATGATCCTGTTCTACCTTAAAT
GCATTCTCCACTTCCTAAATGCACTATCCACTTTCTGCTCTGTTTATTTG
CAGTGAAGAAGTTGAAACGCTGGCAAGGCCTCTACTACACAATCCATATA
TCTTGACTTTGTGTGATAATGGGAATGAAAAGGATGAAATTGTGTCTAAA
AATATTCAGCAATATTATGTGAGCACTTCAAGACCATTTTGGGTTTCTCC
AGAATATCTTCTGCTATATTTACTTTTCTGTTTGTTTGATTCTACCCTAA
ACTTGAATTCTAACACACTCTATCTGGAAGATGTATGCAGTGTTTCCTTT
TGTATCACCTCATCACTACCTGTTTGTTCAAATATTTAATATTTAATATA
ATCTCAGTTATGAATATATCACATCTAACATAGACTCTTGTTGAACTGAT
TTTTTATATTCCAAAACTGATTAGGGTGGAATGAAGTGGTTTTGTTAGAG
CTATATTCTCACTACGTAATTTAGTCACTTTATCAAAGTTCTACTTTTCT
AGACAAAAGATTGTACCAATATTTCTGTATACTGCAATGTGTCTTGAAGA
TGAAGGACGAAGCAGTTTTCTAAAATAAAAAGGAACGAATAGGTTGATAT
ACTGATGTACATGACATGATGACAAGCTTCTTGCAGGACAAAACTTGGAT
ATATTATGAACGGAAAACATTAGAGGAAGGAGAATCTAACATTGCTTGAA
GTAATCCAAACAACTGAATTGCGTAGTTCTATTTAGGAAATTTAAAACAT
TTATATTAATATGATTGAAAAGCTAATGCCTAGAAGAAAAGGTGAAGATA
ATAACTCCTCACTTTTACTAGTTACAATCTGTTACTTCCATTAATCCTTG
TTAATACCTATACTTTGTTGATGTCTCTGAAATTACATTCCTTCTTAGAT
ATACAGAATAAATGAATGAAAAAGTAATTTACTGTTGAGAAACTTATAAT
ATGTAATTATTTAAATCTTGCTATGGTGCTGTTTTTTGAAGTTCTAATCT
ATGTTATGCAGATCAAATGCAGTTCTCGCGATAAGCTTGTTCACATCCTT
GCCCTCTTAAAGCTGGAGCTGGTCCAGAAAAAAGTTCTAATATTTACCAA
CACAATAGACATGAGCTTTAGACTAAAGCTTTTCTTGGAGCAGGTAGGCC
AACTACTTGAAAGATCTTGAAATGGCTGATTTTAGTGCAAGGTGTTCATG
TGACTAACCTTTTCTGGGAATAAAGTGTATTGTGTATTTTTTTGTGTGGC
TAAATTACTGTATACATTTTTAGCTATTATAGATTTCTGAAATTGTTAAC
AATATCTTTGATGCTGTCAGTTTGGAATCAAATCAGCTGTTTTCAATTCC
GAGTTGCCACTGAATTCTCGTAAACATATCATTGAGGTATAGCCTTTGGA
GTGCTAGTCCTGTGCTTCTTCACTTTATAAACTTCAAAAAAATTATTAGT
TTTGCAATACGATGGTTTGTAAGCTTTAAATCTCATTGATAATGTAAGGT
TTGGTCTTGAATTTGTCAATTTACTGTGTTCATAGGGATTTAGTGCTGGA
CTTTTTGATTATATGATTGCTACTGATGATGGTGACTCCAAAGAAAAGGA
AAAAGACGGGGATGGAGATAATGCCGTGAAAAAAAAATCTAAAAGGCGTG
CCAAAGACACTGAAGCTGGTGTAGCGAGAGGAATAGATTTCAAAAATGTG
CATACGGTAAGAACATAAACAGTATACTGGCTTTGTTAATTAATCAAGTT
ATCAGTTCTTGACTTTGCTGCTCAAAAATGTGTGGAGATGTTCCTAACTT
TTTAAATGGGTGCCTTCATGTATTCTTTTGAATATATTTTACCTGGTAAT
TGCTTTCATGGGTGCTACCTGCTGCTTTCCCATTCTTTTTTGATAGAGTT
AAACATCTTAATTAATATTTTCCCTGTATTAAGCCTAGACATGAAAGCAA
AGTTCTTGGATATGTTCTGCTCCTACTTCTGTTTAGGCATATGATAAAGT
TTTTTTTTTTTACAGGAAGTTGCAGATAATGATTTGTTTGATACTCTGTT
TTTTTCCTCTTATCGTAGGGTGATGTTTATAATTAATCATTAGTATTCAT
TAAAGTTAGACCTTAGAAAGAGGCAAGTCATGTATCATCTCTCAGACTCT
TACTCTGTAATATGAAGAAAGATTTAAAAAGACATCAGTTGTTTGTCTCA
TCAGTGTCCAAGTTAGACCTTGGGAAAACTTAATGTAGTGAGCATTGAAT
CTTTTGTGTGCAGGGGCAGGCATTAACAATTGTGCAAGTGCAAGCATGCA
ACTGACAATTATTTTACTGTAAACGATATACAATGTTTTCACTTGGTAAC
ATGTGCTGTGGTTTGAACAGGTTATAAATTTTGATATGCCACAAAGTGCG
GTACGATATGTACATAGAATTGGGCGGACTGGAAGAGCGCATGACTTGGG
TGAATCAGTGTCTCTTGTAAGCTTTTAATTGAAGAATTGGTTTTTTTTTA
TAGACTTATCTTCATATGTTTTAACTGGTTTGAAGGCCTTCTTTAATTTC
TGGGTTAAGCCTGTTCTAATCACTGAACTGACCTAAGAAACGCGTTCACC
TTCGAAGGATTGTTCACTTTTACGATTGTTTCTTCCTGGCACTCCATTGA
ATAATATACTTTTTAAAAATAATAATTATTTAATAGTCGTAACGATGTTG
CACTTGCTTTCTCTTTTTCTCTCTCTGGCCCTGGACAAGGACAAAGCTAA
AATGTTCATAATATATCAAATCCTTGTATTACCGGGCAACTTTAGTACTA
TTTGACTAGTTTATAAGTGTTATCACCAATTTTTAATATATTACTCCTTG
TCATTCATATACCTGTTAAGTTGGCTTGGAAGTGATCTAGTTGGATATTG
GTTTCTCCCTGAATTATGTCACTCATTTAATTGTGTGGAGGCAATGAGAG
GGTTAACCGAGTAAGAAAAGATAATATGTTGAGTACATCAACATACAATT
CAGACGATGACTAGAGGCTGTCAACATAAACTAATTAAGCCTATTTTTTG
ATCGACATAATGATGTTTGATATTTCTTTTATGCTTAGTCAATGCTTTAT
TAGAAAAGCCTATATGGTGGAGAGCTGCCGTTTGACGAGATGTAAATGAG
CTAATGTTTGTGCTGTAGATCAATTTAAGTTGTTAGTTCAATGTCTGTTT
TATTGTTTTTGACTATTTCTGTCATATACAGGTTGCTCCCGAGGAAGAAA
ACGTTTTCGAAGAAATTGAAGCTTTGTTGGGGGAAAATGGTCCAGACTCA
AACCCTATTGCTAAGTTCCGTTTTCCGACTGAGAATGCTGTTGAGTCTCT
ACGATATAGAGCTGAGGTATGTTCTTTAATGGTCTATACTACTTTGTCAG
TTTTTGTCACTCTTTTTGAAGTTGTCAGTTTATTCTCTATTAGAATTATC
TATTACATATTCAATTATTCTATAATTTATCTTTGACATGAACTGATTTC
AAGGGTAGCCATTAAGACAAATATTGAGTCTGGCATGGTAGAGTTGTATC
TCTGATTAATATATGTAAAATACTACCTTTTAACCAGATGCACAAGATTT
TTTTAAAATAATTTATAGCTTGATATTTAAATAGCTATTTTATACATTAG
AATCATATTTCCTTCACATATATTTATACATGCAATCTCTCAATATATTG
AATTCATGACTTATCTTTTTATGTCAAAATGTAATACTTTTTTCTGACGG
ATATATTTTACCTATGTCCCCCCTCCGTCCCAACCATTTCTTTACACTTT
CTTTTTTGAGATGTCTCATCCAATTCTTTACATTTCAAAACTTACCAAAT
ATAGTAGAATTATATAATATAACAATCAACTACTCTTACTATCTTTCTTC
ACTATACTTACTTTATACATTAAATATCAACTGGTCCTACCACTATCCTC
ATTTTTCTTACTTTTCATCTGTACTTTACTACATTTCTTAACCTCCGTGC
CCAACCCAAATGTAAACATTTGGGTGGGACGGAGGGAGTAATAATTAAGT
ATCCAACTTGTGACCTTTCACAAATAAATATATATATTTTCATTTGTCAA
GCTTGGAATCCTTATATGCTGTTTGATAGGAATCGAACTCCTAAACTTTG
TTAGTACCTTTGGATTTTATAAAACTAATAGTAGCTTGTAATATATTGTT
GACAAGAACCGGATTCAAAACCTTTGTAGTATCTTTATAAATTATATATC
TTGGATATTAAATATTTGTTGAAGGGGTTTGGAACCCTAGAACTTTGCAT
AAGATTCCCCTTATGCCTGTTTTTTAAGGTGCCCTCTTACAATTATCATG
TATAGGATGTAATATATGTGTATTAAGCACTTTGTATACTGTTTTGTTTT
ATTTTAATGAATAACATGATACTATTTTATTGACCTTGACAGGATGTTGC
AAGAAGTGTAACAAAAATTGCAGTGAGAGAATCACGAGCTCAGGATCTAA
GAAATGAGATTTTAAATTCTGAAAAGTGAGTAATTTCTTGCTCCATATTC
TATATGCATGCCTTGAATCTGCACCACATGTCCTTATATTATTTTCTCTC
TATAGTTTTGAAATATAGTTACTTACCTAATTTTTATTATTTTTTCTAAA
ACTAAATATCATAATTATCTCAAGACTTACACTGCTGTTTTTCATTGTTA
CAACTATGTGGTGCTTGATTGTACAAGGCTATGTACCTTCTCATATCCAT
ACTATATNAAGCCGAAACAATAAAAGTTTTGGTCGGTCGGTCATTATTTG
GGTCAACTTACGGGCCTCTTTATTGTAAAATGAATGTATCCATGAAGTAA
ATTAAATATTACAACATATAGGAGTACAATAAAAGAACAAATATTATAAT
TCACCTGTGTATCACACAGGCTATAAGCTAGTGTGTGTGTGTAGCCACGT
TACTTTGGAGATGGGATGTTATTGTCTTTTTGTTTGGACTTGCAAATGAA
TGAGCTGTTTGTCTACTTCTATCTACTTAATCATAGAACTGCTGGTAAAT
GCCGCTTGAAATTTGTTAACTGGACTGCAGTTATTTCCAGTCAACCTTAA
TAAGTTTTGACTTTGTATGTGCAAACATTATCATAAGGACATTCTACAAA
CTACACCATACATATATGCACCTAATTTTGAAGAAAAATAATGTTCAAAG
CTTAACATGATTTAACATACATGTTGTTGTGCATGTGCAGGTTGAAGGCC
CATTTCCAAAATAATCCCAAGGATTTAGGTAAGAGAGTTTTTTAGCCGCA
TCATCTATTTTCTATTATTTTTTGATAATCTGAGAAGTGAGTTGATCTGT
TATTATTATGTGGACAGATCTTCTGAAACATGATAAGCCTTTAAGTAAAA
AGGCCCCTGCTCCTCACCTCCGTGATGTCCCTGCATACCTATTGGATCCA
ACAACACAAGAAGCAAGCAAGATTGTCAAGCTTACTAGTGCAGTAATGAG
AAGAAATAATAACTCTGCTCGCCGCAGAGGATCACAGGGGAAGTCTAGGA
ACAGAGATCCTCTCAAAAGTTTCTCTGCCCAGGTATATAGAAGTTATTGT
TTTTCTTATGCTTCTTTTTCTCTAACCTTTATAAAAGAATTGTTTTAATT
AATTCTGACAATACTCCCTGAGCTTACACTTAATGATATCGATGTATATA
TTGATGTAAGATCTATTATTCAGTTTGCACGCAAGTTCAAGATAATGTTC
CCATTAGGCAGATTTCAAGTCAGTAAAAAAGGTTATAAACCCTTTAGTTC
ATTTTGTCACCCCTCATGTTACCCAGAGCTTTTCCCGAGATAGCTTCATG
ATTTGCAGTTGTAAAGTATGAGAGGAAAGATACTACAGAGTCATTTGGTT
GTAGGGATGGCAAACGGGTCGGTCGAAACGGGTTTTGTAAAAACCAAACC
CGAACCCGAATTTATATTGTAAACCCGAACCCGAACCCGAACCCGAAAAA
ACCCGAACTATGTAAACCCGAACCCGAACCCGTCGGGTTCTCTTCGGGTT
CGGGTTAACCCGAAACCCGAAATAAATAATTTTTTTGCAAAAATAAAATT
TTAAAAATTCAGTAGTTTAAAATAAAAATATTGCAAATTCTGAAAATTTG
AAAGGAAATTATAATTTAAACATTACAAAACTATATGGTCCATTTTATTT
ATTTAGTCTGCTAATATGGGGAAAAAAGCACTAAAAGCAAGGCACTAAAA
TCATCCTGATAGTTTACCTTGTGGGTGACAAACAAAGTCAATAAGAACTG
AACCGAGAACTCATGTACCGCACTGCCGCTGATGTGCCGCTGAATCGCAA
CTCTCAAAAGTGAGAACCGAGAAGCAGGAGGCCCGAAGCTAATTAGGTTT
GGGGTCAAAGTCACAATGACTTAATAAGACTACGCACCACGTATGTACAT
ATTAGTATATTACTAATTACTAATATATTAATATTAATAATTTATATATA
TATATGGGTTTCGGGTCGGGTTCGGGTTTGGGTTCGGTTTGAAATGGGTT
TCGGGTTTTCGGGTCGGGTTCGAAACGGTATGCCATAAACCCGAACCCGA
CCCGAAAACCCGAAACCCATTTCAAACCGAACCCAAACCCGAAATATTCG
GGTTCGGTAAAACCCAATCGGATCGGTACGGTTCGGGTATCCATCGGTTC
GGTACAAATTGCCATCTCTGTTTGGTTGGTTAGTATCAGGAATCAGATAT
GGGTTTAGAATCAACCAAACCCATACCTCATGTTTGGTTGATCTTTTTTT
ATTTTTGTACCCATACCTCAGACTCCTAAGCTTATGGTGGCTATGGGATG
GTGGTACAAGGTATCTTTTTAATATTATTTTTATTCCTTAAAAAACAATA
TCTATATGTACAAATAAATGATAATAGTAATAAAAAAATATTTACAATTT
TTAATATGATAAAATATATTAATTTAATTAATAACTTGATAATATTTTAA
ATCAAAAAAAATTATTCCGGCACTTAACCAAAAACATGAGAGCATCTCAA
TTATCTCCTAATTGGCTCCTAAATATAATAAAAATAGTGAGCTCCTAGCT
AGTGAGTACATCATTAGGAGTGTGAACTCCAACAATGCTCTTTATACCCA
CTCCTAACATTATATCTTATTCTTATTTGAACTCCACTATGATAAAAATT
CAAATTCAAATGGTCGAGAATGAATATTTTATTATAAAAATCAAGTTAAG
GAGTCATGTAGTGGCTCTTTAAAGAATGAGAAGAGTCTCCTAGTGTTTTT
AGGAGCCACTAAGAGTCTCGTGGAGCTCTATTTTTTCTCATGCTCCTTAT
TTTTGGACTTACGAGCCTATCTATGAGTCTCTTGGAGATGCTCTGATATT
AGAAATTATACCTCAACCCCATACCATCTCAAACCGATTCCTGATTCCAA
CCCCATACCCCCTCATGAACCAAACAACTTCTAAATGATCAATACAAAAT
GATAGGCTCAACCTGTCTATTTGCAAAGAATATTATGTTCTGGGTGTTGG
CATCAACATCTAATTTAAGTTGCTGATTTTTGATGAAAATATGTATGGTA
TAGTGGTTTTGTTTGGTATTACATTTAGTTTGCATTGTTTCCTGCTTATG
CATGTTCCTTCTGTGGTCACAGGGACAGAAGAATTCTTCAAAAGGAGGGA
TGAAAAGGAAGGGAACAGACGGGGATAGTGGCAAAAAATCCAAAACAAAA
CACACATGATGCATTTTGTTTTACTGCATATAATTTAAGGTGGTCTAATG
TTGTCACTTGTAATGTCCCTCAATTTTGTATCGAGTTTGTAATGCCATAA
CGAATATGTCCCCCCCTGCGGTTCTCAATTATGTATTGTTAGTCTTCAGG
TAACATGATATGTAACTAGCTTACCCACACTGCTCTTAGGTCTCAACCAT
TTTCGGGACATTGGAATGGAAATACATGTTTGTGCTATTTGGGGGTGGTT
AGCACAGCCAGAATTATTGTCA