| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017363615.1, is a part of gene, LOC108196360. |
| The genetic_marker, MK004781 K2225, is located in gene, LOC108196360. |
| 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_017363615.1 | XM_017363615.1 | mRNA | DCARv2_Chr7:10744360..10751739 |
TATGGGTCATAGGCCGAGAGAAAAAGTGAGTCGGGCTTGTTTGTACAGGA
AGAGGACGGTAGAAAGCAAAACCCATGCAACCAATTAACCTAAACATCAA
ACAATAACTACTCAGTAATCACAGATCTCCGCTACTTTTGTCTACACAGA
CTACACCTTAAGCTACTTACTCTCCAGCCCCCTCTATTCATATATGCATA
TATAATCCCTTATTATATATGCATATGTGTTTGTATTTGTATAGTTGAGT
CTGGAATGGTTGAAGATGGGTCGCGATGTGGTGCCTGTGGATCCATCACA
GCCTGCTGTTGGGCTCAAGAAAACCAAAGCTCGGGGCTGGATTCGCTTGG
ATTCTTCGGGCCAGGACACGATTCTAGATGTTGATAAGTATGCTATTATG
CATAGAGTTCATATTCATGCGAGAGATCTTCGTATTCTTGATCCCCTTTT
GTCTTACCCTTCTACTATTCTGGGTCGTGAGAATGCTATTGTTGTTAATC
TTGAGGTACCCCTTTTCTTCTTTTCTCATTTTATTATGTGGGTGTCTTTG
TTTTTGTTCGAATACTTAAGGTTGTGTTTGGACTTATGTTTGTGTTTTTG
TGTTGGCAGCATATTAAAGCTATTATTACTGCGGAGGAGGTATGTGTCTG
AATTTGATTCGTGTGTATTGGATTCTGTCTTGTTCTTTGTTTTTTTGTGG
TCTGAAGTTCTTAGATAAGTTAAAAGTATGGGAATTGGGTGCTGTGATTT
AAATTGAAATCGGAATTGGAATATGATTAAGTGTTTTAGGTATTGGTGAC
AAATTTAATGGCTGCCTGGTTTGTTTAAATTGTCAATGTAGGAAGACAGT
ATGATCACAATAGATACTAGGTCAAAAACATCTTATGTTGTAATTTGACA
TGCTTTGTCTCTGTTTTTTTGTTGACTTTATTCCTTATGTGGATTAATGG
CATGTGGTACTCAACTTTGTCTTTAGAATCAATGGTAAGGGGATATTGCA
CACATTTAAAAATTGCATTCTTGGAGTTTGATTAACAAAAAGGTGACCCG
TGAAATTTTTTTTGGAACTAATCCTTTGTTACTTAGTAAGTTCATATGGA
ATTGCTTGTAACCAAACTAAATACATATTGAAATGTAACAATGTAAAAAT
TGAAAATGTTAGTCAATAATATTCATGTCAATGATATTCATGCTTGTTAT
TCTTTCGGAGTTATTTGATACAGTACTAGCTTGCAATATGTGTCTCAGTC
AGACACATTGAACTGTGTATTGGCCAATCTGAAAGTACAAACATATTTTT
TTCTTGGCTACCATATAAATTCTAATTTATATAATGCTCCTCACCTTAGT
CTGTACTACTTCCCATAATATTTGATGGTTAGGGTGGACCTGTGAGGTTA
ATGTGTTTTGAAATTGAGATAAAGTAGTATTCGTCATTCTTTTTTTTTTT
TTTTTTGTTTTTTAATGATTAGTCCAATACATTATCTACTACTGATAGGT
TTTACTTCGAGATCCATCTGACGATAACGTCATCCCTGTCGTTGAAGAAT
TACGGAGGCGGTTGCCTTTACTAAACAATACGCGGGAAGATCATGGAGAA
GGAAAGGAGTTGGGGGGGCAGAATGATGGGGAAGCAGGTGAAGAAGATGG
TAAGTTCTATCTTTAGATGATAAATCTAAGATGAATTTTTCTATAGGCCT
TACAATTAACAATCTCAATGTTCTTAATTTAGCTTAATTAAATCTTATGT
CTGACATTCTGAATGACAATGCAACAGAATCTCCTTTTGAATTCCGGGCC
CTTGAAGTTGCTTTGGAAGCCATATGTAGTTTTCTAGCTGCCCGAACAAC
TGAACTGGAGACTTCTGCTTATCCTGCCTTGGATGAGCTTACGTCTAAGG
TTGAATCACAACTTTTACACATTATATATACATCAATTATTACATTAGTG
GCTCAAGAAAATACATATATGAAACTTGAATTGTTATATGGGATAAATCT
TAACCGATAGGCCCTTATCGATTTGTACATTGTCCGAAACAATTTATAAA
GGATAGGCTTTATCAGCATCAAGATTCAAGATGCATGTTTTCACCGCACC
ATGCTTTATAGCATTTCTATTCCAATAACACTTACCATTCTATGGTTTAT
ACTTGGTTATACTCTTATTAGTAAAAGAAAAAAGACACCTTCGAATCTTA
TTCAGTTCACAGCCACTTCAAAAATCTGCTTTTTTAATACAAATAGGATG
TGTTTGAATGCCAGACATGCTGCAACGATTTCAGAGGATTCATTAAAACT
TGCAAAGTGGAAGGTATTGGCTAAAGGAGAGTGGCCTCGTGTGGAAACTA
TACCCCAAAAACAATGTTATTCATAGTTTTGTGTGTAACTGGACCCAACA
AACGGTATTATTTGTGGTTATGCGTGTATATCTGGATACATAATAACTAT
ATTATAAATCAGAAAGGGGACATTGTCATCACATACATTTTTTGGATAAG
AAGTATAGTTGTTAATGATATTTGAGATATCTGGTGAAGTGATTGCTTCA
CCAAATCAGAAGGGTACATTAATCAGAAGGGGCTATTGCAAAATTTTCAG
CTTAAGTTATATATACCATATATTTAGGGTGTCCTCTAAAATATTGCATT
ATCGTCCGTGATGAGAATTGTTGATTGGACCCTGCGGCCCATGTGGTCTG
GATTTGCCACCTGGAGCAATGACAACTTCTGAAATTTTTCAAGTTCACAT
CATTTTTGTTTTATTCTATATTTGTAATTATGATATCCCAGTTATATGTG
TCCCTTCTTTATGTTCTTACAGCTATTCATGTTTGGTTGATTAATGTAAT
ATCATTTTCTGAGACAATACTCCCTCCGTTCTTAAATATTTGCTTTTTGA
CATTTTGGCACGCATGTTAAAGTGTTTTGACTATATAGTTAGAAATATTG
TTTTTGAAATTTTCCTTTTCTGAATAAAAATATTATAGCAATTTTTTTTT
TCACAAAAAGATATACTTGAAAATTACATTTCTAACTATGTGGTCAAAGT
ACCTTAAAATGTGTGCTAAAAATTGAAAATGCAGATATTCAAAAACGGAG
GGAGTATACATTTATTCTGATATTTTGGATTCTTATATGTATATGTATAT
TCATAATTGATCATTATAAAATGGATTCTACGTCATGTGCACTCTGATTT
TGTCGCTGGGAGCGAGGACGGTTCCTAGAATTACATTTGGTGTATCTGTT
TTGTAAATTTGATATTCATTTGTTATAAGTGCGATTGTTCTTGCCTTTTA
TGTTCTTACGGTTGTTGATAAATGCAGATTAGCAGCCGTAACTTGGACAG
AGTTCGTAAATTGAAGAGTGGAATGACAAGGTTGACTGCTCGTGTTCAAA
AGGTGTTGACTCCTTGTTTCATACTTTTAAAAGTTTGATATTAAGTAAAG
CATTAACTTTCTAATTTTTTTTTAAAAAACACTATGCCTATAGCTGAATA
TGAGAAGCTTCTGGTGCTTGTTGATCATTTTTCTTAACTCTGTTGTTCTA
ACAAAATTTATTGGTGTGGGCACTTCTTTTAAGCTTGTCTATAATCTGCT
GTGGCTGCTGATCTGTTCTGCAGTCTACTACATGATAGAAGTATTAAGAG
CTATATATTGCATTTTATACTGGCAAATTGAACACTTGATACTGCCGTGT
TTTCATTGCATTTCATACTGGCAAATTGAACACTTGATACTGCCTTGTTT
TTTTTGAGGATCTTGTTTATTTGATAGTAAGAGCTGGACGTTCTTATCAA
GGTAGTTTATACACTTTATTCCTCAAAGGCATTTGTGCCACCTAAAGTCT
ATGCTCACCGGTCATGTTGTAGTTCAACCAAAATTTCTTACCATAAAAAT
CAGTCGGTGATTATTTTTTGGCTATAGTTAATTGATAATTTGGTTAAAAA
GCTGACTTCTAGAAGCAGATCCATGTATCGGTCATATTCTTGATATTCAT
AACTCTCTGTATTTGGGCATGCATTGGCTTTACTTTTTCTGTTCACGAGT
TGTAGGTGAGGGATGAACTTGAACAACTATTGGATGATGACGATGATATG
GCTGATCTTTATTTGTCCCGAAAGTTGTCTAGTGCATCCCCTTTGAGCGG
CTCAGCGGCTGCAAGTTGGTTTATTTCTTCTCCTAACATAAGCTCAAAAA
TATCTAGAGCTAGTAGGGCAAGCATGGCAACTATACGTGGAGATGAAAAT
GATGTTGAGGAGCTTGAGATGTTACTTGAGGTCAGATGCTAACTTATTTG
CTATCTACCATTTAAAGCCACACTAATTTTTAATAACATGGTAGTTCTCT
TTCAGGCTTACTTTATGCAAATTGATGGGACATTAAACAAACTGACGACG
GTAAGTATGGTGCAAATGCTGATGTTTATTAGTAGTTTGTTCATCATCTT
TTTGATGTTAGCTTTGTTCTGATTCAATATTGATTATATAGATGTACCCT
ATATATCAAATTATGAATGTATTTTGACAGATTCTAAAATTGAAAAGAAT
ACGAAATTTCTGTGACCTGATAAGTTTGTATGTATATATTATATATATAT
ATATATATATATATATATATATATATAATTAAAGTGAACCGATTGATGTG
AAAAATCATATTAAAAACGAATGGATTCTGTGGAATCATGTGTGGGAGGG
TACAGGTTTATTGTGTGTGGTGAATGCTAGGGGGGGCCATTAGATTAGAT
TGATCTAATGGCTTAGATTAGTTTGTAGTTTAAATTTTATTTTTGGTTTG
TATTTGATCACACACACACACATATAGGCTTAATGACCCTTTAACCCTCA
AAGTTTGGGGGTTGTCCTGATGCGGCCTCGATGTTTTAACTTGGCCGATT
CAACCCTTCAAGTTTCACAAATGTTCCTTTTAACCCTCATACCGGTATGA
ATGAAAAAAACGGTATATAATGGATGGACAATCATGACATTTCACACGTG
AGGGTTAAAAGGTGCATTAAAAATTGAGGGTTAAAAGAAACATCTAATGT
ATTCTTTAGGGGTTAAAAGGAACGAGATATATACTTTAGGGTTTAAAAGG
AACGCGCAAACTTTACCTTCAATAGTAGTGTTAAGTTTACCCTCCATTAT
ATACCGTTTTTTGACTTCATACCGGTATATGAGGGCTAAAAGGAACATTT
GTGAAACTTGGAGGGTTGAATCGGCCGAGTTAAAACATCGAGGCCGCATC
GGTATATACCCCCAAACATTGAGGGTTAAAAAGTAATTAAGCCATATATA
TATATATATTCTTTAGTGGGGTTGAATTTTCCTGTTCTAGAATGGCATTA
TTCCACTGTATATTGAAATAGTGTACTTCCTTGGTGATCACTGATCAGAT
CTCTAATTTGCATCAATATATAAGAAGCCTCCAAAAGTAAGTTTTTGTAA
ATCAATGAATGATAATGTTTGTTTTGTGTTCATGGAATTATCCTACTTTG
CAGAGGTTTCCCTTTGTGAAAGTTAACTTTATTGTTGCAGTGGCTATAAA
CTCTAATTTCCAACTAACTGTGTGACTGCTTCATTTTTATACGCGTCCCC
AACAAAAGGAGATGATAACAAGTTGTCATCTTTTTTAGTTGATAAAATTT
TGATGTGTGAACCAACTGCGTGCCATGTCCATAATTATTTCATGGTTTCT
ACTCAAAAGTATACATTGTAGATAGGGTTGTAATAGTAGGTTTGGTTTCT
AATTTGAATTATATATGAAAGACTAGTCAGTTTAGCTTTTTTAAGGAGTC
CGCACATGTTGCTTGAGCTTGATTACCTAAATAAATAAAATGTTCAGTAG
TTTTGCACATCTAATTTTTGTAGAAGTCTTTTGTAAATCATTTAAGTTTA
TTTATTGGTGTCTATCATCAAAATAACATGGAATAAGGATATGCCAATTG
GGTCATAAGCCATAGCTAACTTGTAACCGTTTCCGCAGAACAGAGTGCTT
TATTTGAAGGGCGTTTGTAAATATTATATGCAGCTGAGAATAATTGTGCT
GAATGAGGTTGTGAATGGGATTGACCATTGGTTGGTGCATTTATATTCTT
GTTTCACTTGGTATATTACAAAATTATATCATTTGGACTTCAATCGAGTA
TTTTAGAGCTTTTTTGTGCCCATAAGAATGCTGTTTGCTTGTCCTACTTG
TCAGTTTTTAATTACATACTCCATTCCTAGAAGTACGAGCAGAGAGACAT
GATGATTTATCTCATTAATATATCTAACATTGTACCGAAGCTGATGTATA
GCTTGAAACTTTAAATTGCCGTGTAATACTTGATCAAGTTTACATGAAAA
TGTAACTTTTTAGTATCAACAACATGAGTGTGATAGGCATCCATCCACGT
TCACTCTATTATATATAATATGTTACTTGCATGAATATTTCTCACATCAT
TTTATATACAGCTACATGGGTTGTTTCATTCCTATTAACTTTTGTGCATT
CTTATTAACTTTTGTGCCATAACAATGCAGCTGCGCGAGTATATTGATGA
TACAGAAGATTATATCAACATCCAGGTAACTTGCATGCAAATATAGTTAT
TTGCTATTGTCCAGTACTTACTGGTCTAACAACTTCTGCAATTTAATTGC
AGCTTGACAATCATCGTAATCAGCTGATCCAGGTGCCGCGTGAATCTCTT
CTTTAATTTCTCATTGACGCATTTACTGGTTTTTGTACTAAACTTTTACC
ATATATATTTAGTCAATGTTGCTGTCTCTTGTTATTGCAAACACTGTTAC
TGCACTCAAACCTATGTGTGTTTGTATTTTGCTACTATGCCATTCATTAG
CTGCTAATACATGTCCTTTGCATGATACTGCAGCTAGAACTCTTTTTAAG
TTCAGGTACTGTCTGTTTGTCGATATATTCCTTGGTGGCTGCAATATTTG
GCATGAATATCCCATATACTTGGAACGATAATCATGGTTATATGTTCAAA
TGGGTAAGCCTAGAAGTCTCAGTATATGCAGAACCTTAAAAGAATTCTTT
GCTAAGTCGTTTTAATTAATTTTTACTTGTCCACAGGTAGTCAGTTTATC
AGGGATTGCTTCAGCAGTACTTTTCCTACTTATAATATCATACGCCCGCC
TCAAAGGTTTAGTTGGATCTTAAACAATAAAATCGAGCAGAGGATATAAC
AATGAGCAGAATTTCAGTCGGTGACATTCCACTCCTGACTTTCAACAGAA
TGAAGATACTGCTAAAATTTAATTAATATTGTTTAGATCAATGATACATT
ACCTTATGCAGGTTCAAGATAGACTGAAAAATTGATATGCAAGGAAGAGT
TTTGAAATCCTTGCAAGTCTTTTCTACAA