RetrogeneDB ID: | retro_oind_68 | ||
Retrocopy location | Organism: | Rice subsp. indica (Oryza sativa indica) | |
| Coordinates: | 1:9631228..9631447(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | BGIOSGA003192 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_oind_68
ATAGAAAGAAGAATATCAATATATATATGAGTTATAAGAAAATTAATTAAATTACTGTCCTGTTAATGTCTTAATCTATA
TTTGATAGCTAATTCAATGTGTGCGTGCATGCAGGAGACGTCTGATGATGAATCCATGCATCAAGGGCAGGAAGACGACG
AAATGCTGGCGATGGTCCACGAGAGAATTCTGAGGCAGGTGAAGACGAACGACTACGGG
ORF - retro_oind_68 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 56.16 % |
| Parental protein coverage: | 77.66 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VKRSSFLLVVVVFALLLLTSMAAGGRKMLINKHQVQSMETSDDESMHQGQEDDEMLAMVHERILRQVKTN |
| ..R.......V...L..L.S..........N.......ETSDDESMHQGQEDDEMLAMVHERILRQVKTN | |
| Retrocopy | IERRISIYI*VIRKLIKLLSC*CLNLYLIANSMCACMQETSDDESMHQGQEDDEMLAMVHERILRQVKTN |
| Parental | DYG |
| DYG | |
| Retrocopy | DYG |
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_68 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 | BGIOSGA003192 | 1 retrocopy |
retro_oind_68 ,
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