RetrogeneDB ID: | retro_stub_58 | ||
Retrocopy location | Organism: | Potato (Solanum tuberosum) | |
| Coordinates: | 4:66368845..66369670(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | PGSC0003DMG400004929 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | PGSC0003DMG400003635 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_stub_58
ATGCCTCAAAGCTCATCAACAAAGACGCACGATCAAGATCCGACGGACATTACCGGACCCACCCTAAAATCACAGCGTAC
CAAAATGGTGAATACTTCCGATGACAGTGAAAAAAAGAGTTCTGGTAAGAAGCTGAAAGAGCTTGAAGTTGGTGTTCCAA
TAGTGTATGGAAATGTTGCATTTTGGCTTGGTAAGAAGGCGAGCGAGTTCCAGTCTCATAAATGGACTATTTATGTTCGT
GGTGCAACTAATGAGGATCTGGGTGTGGTGGTGAAACGTGTTGTTTTTCAATTGCACTCAAGTTTTAACAATCCTACAAG
GGTTGTGGACAACCCTCCTTTTGAGTTAACAGAATCTGGATGGGGTGAATTTGAAATTGTGATGACCCTTCATTTCCACA
CTGATGTTTGTGATAAGCCATTACACTTATATCACCATTTGAAACTATATCCAGAGGACGAATCTGGGGCTCTATCCACT
AAAAAACCTGTTGTAGTAGAGTCGTATGATGAAATTGTGTTTGCGGAGCCTTCAGAATCTTTTTTTGCCCGTGTACAGAA
CCATCCAGCAGTCAATGTGCCTAGACTACCTCCTGGCCTAAATTTGCCTCCTCCTGTACCTATAGAAGATGTTGATCGAA
GGAAACGTGGTGACACCAAAGATCATCCTCTAAGTCAATTGTTCACAAACTTTTCCGAAGCAGACGAATTGTTAAAACTT
ACAGCAGCTCGGCAGCAGGTGCAAGGTCATATCGCAAGATTGAGAAGACAGTTGAGCATGGTAGATGGTCAGCATCAACA
ATTGAAGCCTGCCTCTGATCTGTGA
ORF - retro_stub_58 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.0 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MPLNSPSMTPNDSDLGGNDADPRLQLTKIANPSEDFEKKTSCKRLKDVEIYVPIVFGTIAFWLGKKATET |
| MP..S...T...............Q.TK..N.S.D.EKK.S.K.LK..E..VPIV.G..AFWLGKKA.E. | |
| Retrocopy | MPQSSSTKTHDQDPTDITGPTLKSQRTKMVNTSDDSEKKSSGKKLKELEVGVPIVYGNVAFWLGKKASEF |
| Parental | QSHRWSVYVRGATNEDLSGVIKKVVFQLHPSFNNPVRVVESPPFELSECGWGEFEIAISLLFHDDVGEKK |
| QSH.W..YVRGATNEDL..V.K.VVFQLH.SFNNP.RVV..PPFEL.E.GWGEFEI...L.FH.DV..K. | |
| Retrocopy | QSHKWTIYVRGATNEDLGVVVKRVVFQLHSSFNNPTRVVDNPPFELTESGWGEFEIVMTLHFHTDVCDKP |
| Parental | LDLYHHLKLYAENEPGPQSTKKPIVVETYNEIVFPDPPEDFFSRIQNHPAVVVPRLPATFKL-PPAPIED |
| L.LYHHLKLY.E.E.G..STKKP.VVE.Y.EIVF..P.E.FF.R.QNHPAV.VPRLP....L.PP.PIED | |
| Retrocopy | LHLYHHLKLYPEDESGALSTKKPVVVESYDEIVFAEPSESFFARVQNHPAVNVPRLPPGLNLPPPVPIED |
| Parental | LHALKRGDTKNHPLSQWFINFSEADELLKLTAARQRVQAHIVKLRRQLSVMDELPQTFKLDSD |
| ....KRGDTK.HPLSQ.F.NFSEADELLKLTAARQ.VQ.HI..LRRQLS..D...Q..K..SD | |
| Retrocopy | VDRRKRGDTKDHPLSQLFTNFSEADELLKLTAARQQVQGHIARLRRQLSMVDGQHQQLKPASD |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Solanum tuberosum was not studied using RNA-Seq expression data.
Solanum tuberosum was not studied using ChIP-Seq data.
Solanum tuberosum was not studied using EST data.
Solanum tuberosum was not studied using FANTOM5 data.
retro_stub_58 was not experimentally validated.
Retrocopy orthology:
Solanum tuberosum does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Solanum tuberosum | PGSC0003DMG400003635 | 1 retrocopy |
retro_stub_58 ,
|