| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017402606.1, is a part of gene, LOC108227461. |
| The genetic_marker, MK009649 6_241679, is located in gene, LOC108227461. |
| The genetic_marker, MK009647 6_248476, is located in gene, LOC108227461. |
| The mRNA, XM_017402607.1, is a part of gene, LOC108227461. |
| 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_017402606.1 | XM_017402606.1 | mRNA | DCARv2_Chr6:240450..248692 |
| XM_017402607.1 | XM_017402607.1 | mRNA | DCARv2_Chr6:240450..248692 |
AACCGTCAATTCACAGACACGAGCCTCACCAAAACCAAAGCATTTTACAA
AGCAACAAGAGAGTCTCTCACACACACACACACACACACACACACATACT
TAGAGAAAAATATATACGTACAGGCGGTGTTAAAGCTGTTTTCCGATCAA
TTAGCGGTTTCACGGAGGCGGTTTGGAGGCGATTGTAAGCGGTATTGTGT
GTTACACCGTTAAATTGAGCTTTTTTTGGTTGATTTCTCCTTTTTTTTTA
TGTGTTTTGTGTGTGTGATTGGTGGATTTTTTGCTTGTTTTGGGTTAATC
ACACTTGTTTTGGTTGGCTCTGTGAGTTTTTTGTTCTGTTTTGCGGTAAT
TTTTTGATTGTATGTGTTTTTTCACCTTTTATTGTGTGTTTTTGACGATT
TTATGGAGTTTAGGTGGATTTTGTTGATTAAACGAAGTGTTTAATGTGTT
TATTTAGGAGATGTTTATATATTGTGCTTATATGTGTGTGTGTGTATGTT
GCTGTTAAGTGGTTTTCTATATTCTTGATATATTGATTATAGTGTGTGTC
TGTTGTTGTCAATTGCTTTTGTACGTGCTTGATATATTGATCAGTCGAGG
GAGAGGGTGGGGGAGGGAGTGTGTGTGTTTGTTGATGTTAATGATTTTAA
GTGCCTCGGTAACTAGTATTTGATAAGGTTCGAACCCTCAACATCCCGTA
AAGGGAGTGAGGGAGATACCATTGAACCAAGAGTTTGTTGGTTGCTGCGT
ATAATATTTGCTTGAGGTTTAAAGCTGAATTATTAGGTCAATGTCAATTG
TGTTTGGTAGAGGGTATTTGACTGATTTGTCCTTGGATACTTGCTTGAGG
TTTAAAGCTGAATTATTAGGTCAATGTCAATTGTGTTTGGTAGAGGGTAT
TTGACTGATTTGTCCTTGGATATTAGATTAGCTTGCTAGATTTGGCATAT
GGTCTAAATTCTGTTCTGTAATGTGCTATTGTGCTATATCATTGCCTCTT
ATTCGATTGTTGCTGATTCTGTCATTGTACAACATATTTTAAACTTATTG
TTTATGTTGTTGGGTCATGTCTCTGGATATAGTTGTAAGCATGGTGAGAA
AGAGGAGAACTGAACTTCCAGGTGGAGGCGAGAGCTCGGGGCCCCAGGAT
TCTAGTGCAGGACATGGTGCACCCCAACGCCCTCCACAGCAGCAGCCACA
ACAGCAAGGACAGGTTTCACCTCAACGCCCTTCTCAGCAGCAGCAGCAGC
CCCAACAGCAGCAAGGAAGAGGGGCACCTCAACGCCCTCCACAGCAGCTG
CAGCAGCAGGGAGGAGTTAGAGGTTCGGCCCCACAGCAACCGGGAGGTGC
ATACCAAGGGCGTGGTGGATATGATGGTGGGCGTGGTGGCCCGCGGGGTG
GAATGGCTCCTCAGCAGTATACTGGGGGACCTCAAGAGTTTTTTCAGCAA
CCTCGTGGACCCGTGCCCCAGAGCCGTGGTGGTGTGGCAAGTGGTGCCCG
TGGAGGATTTGTATCATCTGCTGGTGGACCTTCTAGGCCATCAGTTCCCG
AGTTGCACCAAGCTACCCAGGCTCCCCAGCAAGCAGGGGTAATGACTCAG
CCCATGCCTCATGTATTACCAGCAGAAGACACTCAATCTGTAGCCAGTCC
TGTAGTCAGAGCAGCTAATCCATCGTCCTTGCAGTTGACACAAAAGTTTC
AGCAGATCTCTATGACGCCAGAGTCATCTTCGACCGAGGCTGTTCAGTCT
ATTCCCATGTCAACTAAATCTTTGAGATTTCCACCTCGTCCAGGAAGGGG
AAGCACTGGTTCCCGAGTTATTGTTAAGGCGAACCATTTCTTTGCTGAAC
TGCCTGATAAGGATTTACATCAATATGATGTGAGTTCTATTGACCCTTTT
AATGCAATCTTAAAGATTCGTTAATCAGATTATTAGCTGTTATAATCTAT
TATATAATATAACAGCTGATCCAGTTGGTAGCATGCTTGTTTTTAATGTT
GAAGATTCTAAAATACAAGTTAAATCTGTTTATTAAAGTCGTATCTACAG
AGTATTTGCTTTCTGGGATCAAGTTATGTTATAGTGTGATCTTTTAAGTA
AATAGGTTTCTTCATGTCGCCTAGGTTTCAATCTCTCCGGAGGTCAGTTC
TCGTGGGGTGAATCGTGCTGTGATAAACCAGCTTGTGAAGTTGTATAAAG
AAACTCATCTTGGGAAGCGCCTTCCTGCTTATGATGGCAGAAAGAGTTTA
TATACAGCTGGGCCTCTTCCTTTTATCTCCAAAGAGTTCAAAATTGTTCT
CACTGATGAAGATGATGGATCGGGCACTGCAAGGTATATCTGGATGTAAT
TTATATAATAACTTTTTTGAACGCGGAAGTAGGCTTTGTTGTCGCTATTT
GATTCACCTGCCTTGAATGCAGGAGGGAACGGGAATTTAAAGTTGTTATC
AAATTAGCTTCACGAGCTGACTTGCACCACCTGGAGATGTTTCTAACTGG
GAGGCAGGCTGATGCACCTCAAGAAGCTCTGCAGGTTTTAGACATTGTTC
TAAGGGAACTGCCTACTGCTAGGTAAAGGTTACATGGACTTGAACATTGC
TACTCATCTGTATTTATATATAACTAGACATGTTTAAGTAGATGGCCTGA
CATGAGCAATTGAGTTTTATTTGGTGTGGCTGTTATGCGTTAGGTTTTCT
CCTGTGGGACGGTCATTCTATTCTGCTGATCTTGGACGAAGGCAGCCGTT
GGGTGAGGGTCTAGAAAGCTGGAGAGGTTTTTACCAGAGCATACGACCAA
CACAGATGGGATTATCACTGAACATTGGTTTGTGTTTGCGTTATAATAAT
GTTGTTAAATTATGACATTGATTACTGTAGCTGTATATAGTTTTAAGATT
TTTTTTGCATAATGTCTATTTTGTGTTACTAACACAGCTATGTTCTGTAC
TACAGATATGTCCTCCACTGCGTTTATTGAGCCTCTTCCTGTTATTGACT
TCATCTCGCAACTGTTGAATAGGGATGTTTCATCGAGACCATTGTCGGAT
GCTGACCGTGTGAAGGTTCGAAAAAATTTTGAAATTTATTTTCTGCAGTC
TTGGTAGATCATCAAGATACTGTCTAGATTCGCTTAAGTAATTTTAACTT
TGTGTAATTCATTTATACTACACATTTCATGGAAAATGATTCTATGCATT
ACTCCCTCCGTCCCATAACAAACAAGCATGCTTAAGATGTTAAAGAAATC
ACATCTAAACATAATTATTCTTTATAAAATATATATCAAATAAAAGTTTA
GAATCTAAACTTTTATTTGATATAAGAATTGAATTATTTTATTGAGTGTA
GATATTGTTTTTTGACACCTCAATATACATGTTAAAAACTAAAAAGTCAA
ACATCACTTAAAATGAGACAGAGGGAGTATTATTTTTATTCGTAATATAT
ACCGAGATTCTGTATGAGTGTGCTTGTTAGAACCCTTGGGTTGTGTCTAC
GGGTTTGAATTTTCTATGCCACTTGTATGGACCTATCTGGTCTCTTCTGG
TAGTCTCAGTTTAACATCTTGGACTATATATACATATATGTATATGTATA
ATGTAATTGATAATTGTAGATAACTGATGCTATATGTTTGTTTTTGTTCT
TACATTTTTCCTTGATTGATATTATATTATATTCTCTTTAAGCATATCGT
TTTATCAAGTCTATGTAGCTTGCTCTGTATGTTCCATTCTCTGCCTGTTT
GTCATTTATGTGTGCAATAGTATCAATCTTAGTCCATTCTTTACTTGAAT
GCCAGATCAAAAAGGCTTTGAGGGGTGTAAAAGTTGAGGTTTTACACCGT
GGAAGTATGCGCAGAAAGTATCGCATTTGTGGGTTAACATCACAGGCGAC
AAGAGAGCTCACGTATGAATTAATGACAAAATGTTACTTTTAGTTTTTTT
TTCAGGCTTTGTTCTTGTCTGACATGGTACACTTTGTATGTATGTTTATA
TACATAGTTTCCCAGTAGATGACGGAGGTACTATCAAATCTGTTGTGGAG
TATTTTCAAGAGACATACAAGTTCACGCTAAAACAGACTCAATGGCCTTG
CTTACAAGTTGGCAATCTACAAAGACCAAATTATCTACCCATGGAGGTTT
GTGCATTGCTCTTTTCTTTAGTGTTTCTAGGATGGCCGTGTATTAATTTA
AAACCTCCATGAGATACTCGTTTCAGGTTTGCAAGATTGTAGAGGGACAG
AGATACTCGAAAAGGTTAAATGAGAGGCAGATTACAGCATTGCTAAAAGT
TACTTGTCAACGCCCTAGCGATAGGGAGAAGGACATCCTCCAGGTTTTTT
TTGTCTGCAACACTTCTCTTGTTTATTGTTTTCAATTTTATTTCCTTTTA
AGGTACTGTCTTGTGTGCTTGCTGGTAGTATCATTTGATTTGTGGTGTTT
TTACATACTAGCAAATTATGCATTTGAATTAAAATAAATTTAAAGTTGGA
ATATTTTTGCGTCTCTGGATTTTAACCTGGTCTGCTGAATGTATGTGGTT
GGGATCTCTGATCTCTCACTACATGTTTCGTGAAATAAGATTAACACAAT
AATGTCCTCTTCTTCTGTTTTGTCCTTTAGACTGTTGAGCATAATGCATA
TGCTGACGATCCTTATGCAAAGGAGTTTGGAATCAAAATTAGTGACAAGC
TAGCCTCAGTAGAAGCTAGAGTTCTCTCTCCACCATGGGTAATGCTAAAT
TGTAGTGGTCATACACGTATTCCCGCTGGTTACTTTGGTGATTGACTCCT
TTCCTGTGCAGCTAAAATACCACGATACTGGACGGGAGAAGGAATGTTTG
CCTCAAGTTGGCCAGTGGAATATGATGAATAAGGCAAGTTTTATATTCAA
CAAAATAAAGTGCTACAATCAAGCGTGTTGACTGGCCCACTTTTTTAAGA
TTCAGTGGTTAAATATGCTATCCTTCTTTTCTTCATATAAAAATATAATT
TGTTCTCGACACTAACAAGCTGGCTGTTTGAGTTCTCGTTGCTATTTGCT
TTGAATGGGTTTGTTTAAAGTTGGACGTTGCATCTGCATACATGTGTATT
GAAACAGAACCAAAAACATACCCCTAGCCCATCTATCATATTGTTCTGAT
CAATTTGATTTTTCTTTTTCAGAAAATGGTTAACGGGGGAATTGTCAATA
ATTGGATGTGCTTGAACTTTGCACGTAATGTTCAAGATAGTTTGGCCAGT
GGTTTTTGTTCTGAACTTGCACAAATGTGTACAATTTCAGGAATGGTACA
TAATGCAAGTCTGCTTTTTTGCTTTAATGTTATCTATGACCTTGGCTTCG
TGAACTAAAAATAAACAATGTGTTCCATGTGTAGAGGTTCAATCCTGATC
CCGTTCTCCCTCCAACCAGTGCACGTCCTGATCAGGTCGAGAGAGTATTA
AAAACAAGACATCAGGAGGTTATGAAACTCAAGAAGGAGCTTGACTTGTT
GGTTGTGATTCTACCAGATAATAATGGCTCTCTTTATGGTATGCAATCTG
TAGCTCTTAGATGATTATAATATTCACTTTTGGTGGATGACTTATTTATT
TGATTTGTGTTTGCGCACTTTGTCTGATGATATTCGTTTCATTGAGATTT
CGTTTTGATGATTCGAAGGTGACTTGAAAAGAATTTGTGAGACCGAACTC
GGAATAGTGTCGCAGTGTTGCTTGACAAAACATGTCTTTAAGATGAGCAA
GCAGTATCTGGCAAACGTGGCCCTGAAGATCAATGTCAAGGTTGGAGGAA
GAAATACTGTTCTTCGTGAGGCAGTGTCTAGGCGGATTCCACTTGTGAGC
GACCGACCTACTATAATTTTTGGTGCTGATGTCACACATCCTCATCCTGG
AGAAGATTCTAGTCCATCAATAGCAGCAGTATGATTCAAGTTTTCATTAA
GTGTTTTTATATTCTTGATTTGTGTTATGATGTATTAATATATATACAGT
TGCGGTGTTGCCTCTATTAGACCAGTATCCTTCATTATCTACCGCTGTTG
CTTTCGTTGATTACAAGATATGTTGCTAAAATTTTAGGTGGTTGCATCTC
AAGATTGGCCTGAGATCACCAAGTATGCTGGCTTGGTCTGTGCCCAAGCC
CATAGACAGGAGCTCATCCAGGATCTGTACAAGAGCTGGCAGGATCCGAA
CAGGGGGACTATAGTTCATGGTGGCATGATTAAGTAAGATCTTTTCCCCA
ATCTTTAAATGATTAACAAATAAACCAGACTGGTTCCGTTTATGTTTTGT
GGTTTCTGATCAAGTTGTTGATTATGTTTCTGTGCTCTAGGGAGCTGCTG
ATTTCATTCCGCAGAGCAACTGGGAAAAAACCTGAGCGCATTATTTTCTA
CAGGTATTATAACGTCTATATTGGGACATATCGTGGGGCTCTTCTATCTA
ATTTACCCTTGTTCTAATTATGAACTCATCATGCAGGGATGGTGTTAGTG
AGGGGCAATTCTATCAAGTTCTTCTCTATGAGCTTGATGCGATTCGCAAG
GTGGTATTTTGGGATGTTTGCAGATTATATATATATATAAAAATCTATTT
AAAATTTAGGGTTCCGCAGTAGAACCTTAGTGGTTCTATGACACTATTTT
AAGGACTGGTTCTCCCTTAAGCGCGACCCTATATATATATATATATATAT
ATATATATATATATATATATATATATATATATATATNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNATATATATATATATATATATA
TATATATATATATATATATGCATTTTTAGCTTTGCTTGTGAAATATAAAT
TTGAACCTAATGTACTTGTTCCTGCACCTTTCATGTCTATAACTCCAATA
AAAGGCATGCGCTTCATTGGAGCCCAATTATCAGCCTCCCGTGACATTTG
TTGTGGTTCAGAAACGCCATCACACAAGGTTGTTTGTCAACAACCATCGT
GACCGTAATCAAGTTGATAGGAGTGGAAATATTTTGCCTGGTAGACCTTC
GTTCCTTCCCTCTTGTGTTGTGATATCTGTTATACATTGCAGGGCTATTA
CCTTAAATTATTTTGTACTGTTCAAATTACAGGTACTGTGGTTGATTCTA
AAATCTGTCACCCCACTGAATTCGACTTCTATCTGTGTAGCCATGCGGGC
ATTCAAGTAAATTAATTAACCAAGTGGTTCATGGTCAGGTTCATTTGTAG
CAGTTTTAAGAAAATTCTGATTATTTTGGCTTCTGTGCAATAACAGGGAA
CCAGCCGGCCAGCACATTATCACGTTCTGTGGGATGAGAACAAGTTTTCT
GCAGATGGATTGCAATCCCTTACCAACAATCTATGTTACACGTAAGTACA
TATTTGTTACTAGTTGGCAACTACATAGTTTTACCGTGGTGTTTTAAATT
GCTTAAAATATTGGGCAAAGCTATTTATTGAATCTTGGTGGACCTAAATT
TATGCCCCCTTTTCCTGTGCTTTTCAGATATGCCAGGTGTACACGATCAG
TTTCAATTGGTAAGCTTCTCCCCTTAATTCTGTAGCTCTTTCAGACATTT
TTAAATGTTTGATGTTAATTTCCAACTTTCTTGCCAGTGTCTGTATTTAA
TTCCATTTTGTTTTGTAATGACAGTGCCACCAGCATATTATGCTCACTTG
GCAGCCTTTCGAGCTCGCTTTTACATGGAACCTGAGACTTCTGATGGTGA
GTCAATGGCGAGTGCCGCTGGTCGTGGAGTTGGAAGGAACACCAGGGCAG
TAAATGCCAATGCAGCTGTTAGGCCCTTGCCTGCTCTGAAAGAGAACGTG
AAAAGAGTGATGTTTTACTGCTAGAAGAAATCTCAGGTGGTTGTGAATCT
AATGGCTGCAGCTATTGCTTGGACTATGACATCTGCTTTCAGCTACTTGG
TTTTTATTTCAGCTTTCAGTATTTTGACCATGTGAGCTTAATTTGTTCCA
GATATGGATTTGATCAGTAGAATTGCTTAACCATCATTATATTGGTAAAC
TGCATATGTTGCCCTTTTATTGTTAAGGTCATGTTATCTGTA