| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017371566.1, is a part of gene, LOC108202937. |
| The genetic_marker, MK006087 K3531, is located in gene, LOC108202937. |
| The mRNA, XM_017371569.1, is a part of gene, LOC108202937. |
| The mRNA, XM_017371565.1, is a part of gene, LOC108202937. |
| The mRNA, XM_017371567.1, is a part of gene, LOC108202937. |
| 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_017371567.1 | XM_017371567.1 | mRNA | DCARv2_Chr9:33360387..33368383 |
| XM_017371565.1 | XM_017371565.1 | mRNA | DCARv2_Chr9:33360387..33368383 |
| XM_017371569.1 | XM_017371569.1 | mRNA | DCARv2_Chr9:33360387..33368382 |
| XM_017371566.1 | XM_017371566.1 | mRNA | DCARv2_Chr9:33360387..33368222 |
GGAGTACCTAGGAGGGGGGAGTCTGAAATTTTTTAAGAGCCGACAGACTG
TGGTTTGAAAAAGCCATTGAATATTCTCGGATAATTTCCATTTTGCGTAA
TCGTCAGCAGTGGCGGCCCCGGTTGAGTTATTCAGTCAACTTGTGTAAAG
GTAATCATGCAACTCAAATCATCATCATTATCGCTTACTTACACTACTAC
TACTATCTTAAACATCACTTGATTCGATCTTTATTTTCATTCAATCTACG
TTGACTTATTTATGTTAAGTAGTTAGATTCATTCTTATTCGAGTTTTGGA
GATTGATTCTGTTAAGTTGTGTGCCGTTACTTTTGGTATTGATTAGTTGA
TTTTAGGAGGATTGAAGATGAAGTTAGCTCCCAGAGAAATCGAGAAATTA
ATGCTGCACAATGCGGGATTTCTCGCTCAGAAGCGCCTCGCACGCGGCCT
AAGGCTTAATTACACGGAAGCTGTTGCACTCATAGCGACTCAGGTTCCGA
TAAGCTTGTCATTTCTGTTTAAGTAATTATGTACGAGATGAGTGGAAGTC
TTCTGTTTTATCGATTTAGTTGTTGTCAGATTTTGGAGTTTGTACACGAT
GGAGACAAGAGTGTTGCCCAACTAATGGATATCGGAAGACAGCTTTTAGG
AAGGTATGGTTTCAACTAGTTTTAAATTTCGAGTAGAGTTGAAGATTTTT
GTGTAGGGTAAAATATGAGTCGTGTTTGAGTAAGTAAATAAGTCCCATTT
TCTAAGAGAAGAAAGGCTTTAGTTGTCCGTGGGAATGTATGAAGTTTACA
TATGGATACAAATGTATTTTAATCAACTTGATGTAAATTATTCATGGCAT
ATATATTGCTGCCAGTGATCTGTGATTGCAATTCATGAAACTTCCATATA
AGCAGGAAACGAGGATATATTGTGCTGTCAAAATTAGTTATTACCCAATA
CACTCATTAATCTTATAGATGCATTATCTGTTAACAGGAGACAAGTTCTT
TCAGCTGTTCCTCACCTGTTGGATTCCGTGCAGGTATAAAACTTATCTCC
AACTGGTTATTCTATTGAACTTTCTAGTAAGTAATAGATGTACTGAGAAT
TCTCTATACCGCATCCACTCTATAGTGGTATGCGTAACACTTGTAGAATT
CTCTGGTCATCTGCGTTTAAATGTAAGGTTTGTTTTTCCAAGGACGGATT
GAATGCTCTTAGTGTACATGTAGCAATTCATTAAGAACCGTTTTTACTAA
CCCTTATCTGAAATCATCACTGCAGTTTTTTAATTTTAGAAATTCTTCCT
CTGCATATGTTTTATCTTTACATATTATCGTGTTTTTATGCTATTCAAAA
CAGTTGATCTAAATAGCAATGCTCATTGTACTTTTAGGTTGAGGGAACCT
TTCCTGATGGTACAAAGTTAATCACGGTACATTATCCGATATCCAGTGAA
AACGGAAATCTGGAGCTTGCTTTGCAAGGTTCTTTCCTTCCAGGTGGGAC
CATTTGTTGCTATTATTTATCTGACAAGTATGTGACTGTGATTTACTATA
TACTCATTGCTTTTTACATATAATTGATAATTTATACGTTCACATGTGTT
CAGAGGATTTCATTTTAGATGTTTGGTTTAAATGATACGTTCCATACATG
TACTAAGACTAAATCCCTCCATTTTTACAGATTTTATAATGCATTTTTTA
TATAAAGCCAGCGAAATACTCTAATGTTCATCTTCATATTGTTATTTAAT
GATCTTGGGTATCAACCCCTTCCAAAAAAGCTCTTCACTGTACTATGATT
TCCTGATGCTTGCATAACGTGAGTCATATTTTTTGCTAAGTACATTAGAA
CTGTAATATATATAGATCATGTACCTTAAAGTGTACTGGAACATATTGCA
CATGAATTTGGTTCCTCCTTACTATATGAAGGGCTCTAATGCGAGGGTGT
TAGTTCTGCAGTTCCTTCACTTGAAAAGTTTCCCAGTGTGGAAGGCGATC
TAATTCCCGGTGAAATCAGGTTTGGAGCAGGATGTATTACGCTTAATCCC
GGAAGGAAAACAATAAAGTTAAGAGTCAAAAACACTGGAGATAGACCAGT
TCAGGTTGGTATTACACACACATGTTTACATACTTCTATAACATAACATC
TTTTTAATACAGGCTCTGTAATCATAAAGATGGAAGTTCTTACTGTCTGA
TCATAGTAGTTGTTTGCATTTGTGCTTGGATATATCCCCTATTATTTCAG
GAGGTTCATTCATCATGCAATTCACTTGTATAACTGTTGAAAACTATGGC
AATTATTTGTTGAAAATATTTATTGTAAGCTGTAAATATTCTTTTGTCAC
TAAAATACTGAAATTGTGTTTAAATCAGACATGTTTCGTTCATTCTAGAA
TAGGCTGTTTCATTTTGTATGCTATGTTATGTGAACTGAATTCATACATA
ACAAAGACTTGCATGTATTCCTGTTTTTGCCGCAAATATCTACTAAGACA
GCATTTTATCCTCTTCTGTTTGAAAGAAATGTAATATTCTGACAGTGTTG
ACAATTTTTCTGTCTTGCAGGTTGGTAGCCACTATCACTTTATCGACGTA
AACCCTTACTTAGTTTTTGATCGAAGAAAGTCTTATGGGATGCGCTTAAA
TATACCAGCAGGAACAGCTACCAGATTTGAGGTCAGGCATGCAGAATTCC
TAGTTTGCAGATGATCCCCTTTTAATATCTGTTAATTGGTATAATTTTCT
TGATATTCTTTTCTACCTCTAAGACTAAGAGCTTTTGTGAGTCTCTGCTG
ATATACTTGCTAGTTATTACCATCTAACCTACCTCTTCTAAGACAAATTT
CTCTGTTAGTTCCTCCTAAAGCAATACAAAGAAACTTTACCCCCACAACA
GATAAATTTTATTGTGTTATTTGACAATAGTAACAGAGTCGCCATGCTTA
CCGTGTAGCTAAACAAAACTTGACTTGAGTGTAACTTCTGGCATGTTGTA
CACAGAACCAAAACTAAAAATAGTGTTGCATCAATTTTTTTTTTTCTTTT
TTGTTTTGAGCTTGCTCTTTTATGTCAAATATAATGTGTATCCTTCAATA
TGCACATAACTAATATGCATTATTTGTAGCCCTCACGGTCTGCTGTTCAA
AATATAGTGGCAGTTCAATATATGTTATCTTGTCCAGATGTTGATCATGT
ACTTGGGTTGAAACTGAATTTAAGGTTCAGTTGCATCCGTATGTACAATG
ATCAGTTTACACCGATCTTCTTCATGTTTTACTGGATATTAATTCTGGCT
AAGTGGACACTTATTTCACTGCTGTTAGCTAGTCACCTGATTGGACATGT
AAAATTTGACAAATAAATCTTTCTATCAGCCAGGCGATGCAAAAACTGTT
ACTTTAGTACAAATAAGTGGTAAGCAAATTATTCGAGGAGGAAATGGTAT
TGCTGATGGTCATTTCCATGATGCAAATATTGAAGCAACAATGGAAAGGG
CACTTGAGAGGGGGTTTGGTCACTTGGAAGAAATGACTGATAGGTTTACA
AAACATTTCTAGTACCTTATTTTTCTTTCTCTCACAACTGTTGTACATTC
TAAAAAGTCAAATTGCTCAATTGTTTCATGTTTCGAAAATAGGCAGCATG
AGAAATATAAAACAAAACCCCTGATTTAACACTGTTTTGCAGAGCATCTG
CTACGGTAGAAGACTGTGAGACTGTACTCTCCCGTGAGGCCTATGCTAAC
ATCTACGGTCCAACAACCGGTGACAAAATTCGACTTGGCGACACTGACTT
ATTTGCAGAAATTGAAAGAGATTATGCTGCTTATGGTGATGAATGTGTAT
TTGGAGGTGGTAAAGTTTTAAGGCAAGGAATGGGGCAGGCTTGTGGGTGT
AATCAGGTTGATAGTCTGGATACAGTCATCACAAATGCTGTTATCATAGA
TTTTACAGGAATTTTCAAGGCAGATATTGGCATTAAAGAAGGTATTATTG
TTTCTCTTGGGAAAGCAGGCAACCCAGATGTCATGGATGGTGTTATGAAC
AACATGACAGTTGGGGTGAGTTCTGTCTCGTAATGTTAACATAAAACATA
ATTTTAATTCATGCCATTGGGTCATTAATATTATTATATATGGTCTCTTA
TTTAAGGTGAATACAGAGGTTATTGCTGGAGAAGGAATGATAGTTACAGC
AGGAGCTGTAGATTGTCATGTGCATTTTATTTGCCCACAATTGGCACATG
AAGCAATCGCAAGTGGTGAGATTAAAATAATTAGGAATGATAATTCTGAA
AAGAGCACATAGCTTCACAGACATTAACAATCTTGTAATAATTTGCTGCC
TTCGATAAGTATTCCCCCCTCCCCCGATCTCTATGCTTCTCGTTGTTTTC
TTCTATTCCCACCACATTCCGTTCCATTCTATCTACACGAACACAGCTTG
AATGTTAAGTTGTTTAAAAGAGTAAATCAGTTAATCTCATATATTATGAA
CATTTTAACAGGCTTAATGGTTTTAGGAAAGCACTAGGACCAGACTTAAC
TCTTGCGTTTAAAACATCAAGCCCGTTAAATTGTATATATCACATAAGAT
TAACTTTTTAAGAATAAACAATTTTATTCAGCACTTGAAAAATACTGGTG
GGGTTGGGGGTATTAAAGAATCAAAACAGCAATCTTTTTCAATATCTGTT
GTGATTTTTCTTCATAATCCTGTGAAGTGCAGGTATCACAACAATGGTGG
GAGGTGGAACTGGACCTTCCCATGGGACTCGTGCTACCACTTGTACACCG
GCACCATGGCATATGAAATTAATGCTGCAATCCACTGATGAACTGCCACT
AAATTTTGGTTTTACTGGAAAAGTATGATCATTATTTATAAGTTTTTATA
TTATTGTAGTTGCTTCTTTTTCTGGTTTGTCAAGTGGGCATGATATATAT
TTGTATATTTATATGAAATAGAGTTCCTTGATAATTTAAGTTTACCACAT
ATGTATGCCTTGTAAATTACTTTACCTTTTTTTAGGGTAATACCTCTAAA
CCAGAAGGGTTACATGAAATTATTAGTGCTGGTGCAATGGGACTGAAGCT
CCATGAAGACTGGGGAACTACGACTGCTGCAATAGACAATTGTTTGACTG
TTGCAGATCAGTATGACATTCAGGTTTTTAATTTTGTGACATTTTCTACA
CCTTCCCCATAACTTCGCATTCTACTTCAGTCTAGCTAATTTTGGAATTT
GTTAGGTTAATATACATACTGACACCTTAAATGAATCTGGATTTGTGGAA
CACACAATTGATGCTTTTAAGGGTAGGACTATTCATACTTACCACAGGTA
TACTATCCACATACTGAAACCCCGTAACTTTACCCCTACACTGCCATTTT
TACTGCATCCTACATATTTCAATAGAAGTTAATATACTTATCATTACTTT
TGTGCAGCGAAGGTGCTGGGGGTGGCCATGCTCCGGATATTATCAGAGTT
TGTGGTGTCAAAAATGTTCTTCCCTCATCAACAAACCCAACACGTCCTTT
TACTTCAAATACTATCGATGAACACTTAGACATGCTGGTAGATTGATATC
ACAATATCTTGCCAAATTTCTTTACCTAAATATTCAGTATTCATATACTA
ATCTGTTGCATACAGATGGTCTGCCATCACCTTGACAAGGATATCCCGGA
GGATGTTGCTTTTGCTGAATCTCGGATTCGGGCTGAAACGATAGCTGCTG
AAGACATTTTGCATGATATGGGTGCTATTAGCATCATATCATCTGATTCA
CAGGCTATGGGTCGGATTGGAGAGGTTTCTTAATTGACTATATATTAATT
GCTTAACTATATTTATCCACTTCTAACACATGTGTAGGNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNGTAGGGAATACATATTAGATTTGCAAAATGCA
TTATAGTATGTAACTTAATATTTGACACATCTATATCGTAGAATTGCTAC
TTGTTTATAATCATGTCAACAATCTGTAGTTCTAGGCTATGTTACCCGGA
CTCTTCATTTTGTCTCGAGTACCCGTGTCGGACACTCGACACTCGGACAT
GGGTATGGACACTCCGACACTTATTTTAAGCCAAAAACATGTAAAATTTT
CAAATTATTGCCGAGTCCGACACTCCGACACGTATCCATGTTGGACACTT
TTAGCCGAGTCCGGGTAACTTAGGTTCTAGGTTCAAGTTCGCCATGGTTA
GAATTATATAAAGAAATTTATTTTCTAATTACTATCCCTTGAAATTGACA
GTGACATCTTCTATAGTTTTATGTATAATGCATGAAGGCAATAAGTTCTT
ATGTAGCATGAAATTTGGAACTTGTTGTCCTAAGAAAATACCTTCCTTTA
CCAGGTGATTACCAGAACGTGGCAAACTGCTCACAAAATGAAATTGACAA
GAGGACCAATTGAAGGTGATGGACCAGACAATGATAATCTTCGGATTAAA
CGTTATATAGCAAAATACACTATAAATCCTGCAATAGCGAATGGATTTTC
TCATTGTGTTGGGTCAGTTGAGGTAAGCTACCTTTCTCGGAATTTTAATA
TATTATATTAATTGAATAACAGGCATAGTATAAAACAATAATTCGATAAG
ATAAGCCTTTACAGGCTCACCCCCGTATAGATTGCATATTATCCCTCATT
TAACTTTTTTTACTGCAACGTGCAATCTGAACTACCACGTACTAATTTGA
AGTAAGTGCTTATGCAGGTGAATAAGTTGGCCGACCTTGTTATCTGGAAA
CCTTCCTTTTTTGGGGCCAAACCAGAACTGGTGATTAAAGGTGGTGAAAT
TGCATGGGCGAACATGGGGGATCCAAATGCTAGCATCCCCACTCCTCAAC
CGGTATATGAATCTTGATACCTAATTAGGTGTCTAATTCTAAAGTCTAAA
CTCAAGTATCTTGATGTGCATACATGAGTATTAGAATTTAAACAGTACTT
TTTGCGCATAATTGGATCTTATGCTATAGACCTCCGCCAAACCAGAGCTC
TGATACCATGTTGAGCACCAGTCCATCTAAAACCTCCCAATTGGATCTTA
TGCTATATTTCAACATATACACACACTCTTGGTCATGGAATTAAAGTACA
CGGCATCATTCTAAACTCAAATTAATGTTTGCTGAATCACCATTTGGCAG
GTTATCATGAGGCCCATGTTCGGAGCTTTTGGCAAAGCTGGAAGCAGCAA
TTCCATGGCATTTGTTAGCAAGGTTTTGTCCTTTCCCATTATCTTATCTA
TTTAAATACATCATTCCCATTTTTGGCATTTAAATATTTCATACCATAAC
TGTATTTGATCCAATCCCTGCCAACCTCGTAAGCAGGCAGCAGTTGATTG
TGGTATAAAAGACACATATGGGCTCAACAAGAGAGTAGAAGCAGTCAGCA
ATGTCAGGAAACTCACAAAACTTGACATGAAGCTGAATGATGCACTTCCA
GACATCAAGGTCGATCCTGAAACATATTTAGTGACAGCAGACGGTGTTGC
CCTTACCTGCAATGCAGCTACTGAACTTCCCCTTTCTAAAAATTATTTCC
TGTTTTAGAAACCATCAGTAGTAACTTCCATACAAACTCATTTATGCAAC
ATGAATGCACAAGATTTTTGGCACGTATATGAAGACAGCTTAATTAAGCT
GTAAACCTTGGCTGTCTATCAAGTGCCACGAAGCTCTCCTCTATTCTTGG
CAATAAGAGGTCGAAGTATAAGTCTCCAAGAAGGCATGTGTGAGATACAA
TTTAATTTTCTGTAATTGACAATAAGAGGCCGGAGTTTAAGCCTCCGAGA
AAGTAATTATATGCATCCTCTTTTTGTGTTCAGATGCATATGAATTAGGT
ATTCCTTGGGACCAAAATTTTATACTTTGTATTAAAAGGATATTGTGAAA
TCGAATGGCTTCATTTATACTAAAATGGACTTGTCAGAATAACTCA