RetrogeneDB ID: | retro_rnor_1296 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 17:33543349..33543670(-) | ||
| 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: | ENSRNOG00000047189 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_rnor_1296
GACATTAGGATGACTCAGACTCCAGCCTCCCTGTCTGCATCTCTGGGAGAAAGCGTTACCATCACATGCCGGGCAAGCCA
GGACATTGGCAAAAGTTTATTATGGTTTCAGCAGAAAACTGGGAAACCCCCTAAGATCCTGATATATACTGCATCCAACT
TGGTAAGTGGGATTTCACCAAGGTTCAGTGGCAGTGGATCAGGTACACAATTTTCTCTCAAGATCAGCAGCCTGAAGCCC
GAAGACACTGCAAACTATTACTGCTGTCAGGGTTACTCTTTATCTTCCACAGACATTCAAACCATGACATATACCACTCA
G
ORF - retro_rnor_1296 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 64.49 % |
| Parental protein coverage: | 98.17 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | DIQMTQSPSSLPASLGERVTISCRASQGISNNLAWYQQKPGKSPQLLIYGATSLADGVPSRFSGSGSGTQ |
| DI.MTQ.P.SL.ASLGE.VTI.CRASQ.I...L.W.QQK.GK.P..LIY.A..L..G...RFSGSGSGTQ | |
| Retrocopy | DIRMTQTPASLSASLGESVTITCRASQDIGKSLLWFQQKTGKPPKILIYTASNLVSGISPRFSGSGSGTQ |
| Parental | FSLKISSPHPDDTAMYYCQQGYSDPPTVIQAMATTQE |
| FSLKISS..P.DTA.YYC.QGYS...T.IQ.M..T.. | |
| Retrocopy | FSLKISSLKPEDTANYYCCQGYSLSSTDIQTMTYTTQ |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP017611_brain | 0 .00 RPM | 0 .00 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .07 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .13 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1296 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1296 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1296 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000047189 | 3 retrocopies |
retro_rnor_1296 , retro_rnor_1698, retro_rnor_1782,
|