RetrogeneDB ID: | retro_oind_11 | ||
Retrocopy location | Organism: | Rice subsp. indica (Oryza sativa indica) | |
| Coordinates: | CH401014.1:241..670(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | BGIOSGA040390 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | BGIOSGA004458 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_oind_11
ATGTCCACTTTCAGCGCAAAGCCCGCTGAGGTCGTGCACGAGTGGTTTGTGATTGACGCGACCGACAAGGTCCTCGGACG
AGTAGCCAGCGAAGTTGCTCTCCGTCTGCGCGGCAAACACAAGGCCATTTACACGCCTCACGTCGATACCGGCGATTTCA
TCGTCATCATCAACGCCTCCAAGCTCAAGGTCACCGGCACCAAGTCCCTGGACAAGGTGTACTACCGCCACTCCGGCTAT
CCCGGTGGCATCACGGCGACGAACTTCCGCGACCTGCAGGCCAAGCACCCCGGCCGCGCACTCGAGAAGGCCGTCAAGGG
CATGCTGCCCAAGGGCCCCCTGGGCTACGCCATGATCAAGAAGCTCAAGGTCTACGGCGGCGCGGAACATCCGCACACCG
CTCAGCAGCCCAAGGCGCTGGAAATCTAA
ORF - retro_oind_11 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 55.47 % |
| Parental protein coverage: | 54.94 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | WYVVDATDKILGRLASTIAVHIRGKNEATYTPSVDMGAFVVVVNAEKVAVSGKKRSQKLYRRHSGRPGGM |
| W.V.DATDK.LGR.AS..A...RGK..A.YTP.VD.G.F.V..NA.K..V.G.K...K.Y.RHSG.PGG. | |
| Retrocopy | WFVIDATDKVLGRVASEVALRLRGKHKAIYTPHVDTGDFIVIINASKLKVTGTKSLDKVYYRHSGYPGGI |
| Parental | KEETFDQLQKRIPERIIEHAVRGMLPKGRLGRRLFTHLKVYKGAEHPHEAQKPVPLPI |
| ....F..LQ...P.R..E.AV.GMLPKG.LG......LKVY.GAEHPH.AQ.P..L.I | |
| Retrocopy | TATNFRDLQAKHPGRALEKAVKGMLPKGPLGYAMIKKLKVYGGAEHPHTAQQPKALEI |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Oryza sativa indica was not studied using RNA-Seq expression data.
Oryza sativa indica was not studied using ChIP-Seq data.
Oryza sativa indica was not studied using EST data.
Oryza sativa indica was not studied using FANTOM5 data.
retro_oind_11 was not experimentally validated.
Retrocopy orthology:
Oryza sativa indica 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 | |
|---|---|---|---|
| Oryza sativa indica | BGIOSGA004458 | 1 retrocopy |
retro_oind_11 ,
|