RetrogeneDB ID: | retro_rnor_1258 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 17:19843869..19844440(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NKIRAS1 | ||
| Ensembl ID: | ENSRNOG00000008565 | ||
| Aliases: | None | ||
| Description: | NF-kappa-B inhibitor-interacting Ras-like protein 1 [Source:RefSeq peptide;Acc:NP_001100722] |
Retrocopy-Parental alignment summary:
>retro_rnor_1258
GGAAAGGGTTGCAAGGTTGTCATTTGTGGGCTGTTGTCTGTTGGGAAAACTGCAATTTGGGAGCGACTCCTTTATGGGAA
TCACAGTATTGGGGTGGAAAACCGTGAAACGCTGGGAGACGTGCACGTGGTATCTGTGGAGACAGCCTGTGGGGGTGAAG
GAGCAGCTGCACTTGAACGACACCGAGGCCTGCAGGAAGGCAAGGAATTGCCAAAGGCATCATTTCTCATTTGCTGATAG
CTTTGTCCTTGTGTACAGTGTGAATCACCTCGAGTCCTTTCAAGGAGTGGAGCTTCTGAAGAAAGAAATTGATAATTCAA
AGACAAAAAAGGCGGTGGCAATTGTTGTGTTAGGAAACCAACTGGACCTTTCTGAGCAGGGACAAGCGGATGGTGACGGG
GCACAACAGTGGGCCAGAAGTGAGAAAGCGAAGCTCTGGGAGGTGATGGTGACGGACCGCAGGACACTGATTGAGCCCTT
TGATTTCCTGGCCAGCAAGTTTTCTCAGCCCCAGAACAAACCTAGCTTCCCTTTGCCTGGGAGGAAAAACAAAGGGAACT
CCTATTCTGAA
ORF - retro_rnor_1258 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.79 % |
| Parental protein coverage: | 98.96 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | GKGCKVVVCGLLSVGKTAILEQLLYGNHTIGMEDCETLEDVYMASVET-DRGVKEQLHLYDT-RGLQEGV |
| GKGCKVV.CGLLSVGKTAI.E.LLYGNH.IG.E..ETL.DV...SVET...GVKEQLHL.DT.RGLQEG. | |
| Retrocopy | GKGCKVVICGLLSVGKTAIWERLLYGNHSIGVENRETLGDVHVVSVET>PVGVKEQLHLNDT<RGLQEGK |
| Parental | ELPK-HYFSFADGFVLVYSVNNLESFQRVELLKKEIDKFKDKKEVAIVVLGNKLDLSEQRQVDADAAQQW |
| ELPK.H.FSFAD.FVLVYSVN.LESFQ.VELLKKEID..K.KK.VAIVVLGN.LDLSEQ.Q.D.D.AQQW | |
| Retrocopy | ELPK>HHFSFADSFVLVYSVNHLESFQGVELLKKEIDNSKTKKAVAIVVLGNQLDLSEQGQADGDGAQQW |
| Parental | ARSEKVKLWEVTVTDRRTLIEPFTLLASKLSQPQSKSSFPLPGRKNKGNSNSE |
| ARSEK.KLWEV.VTDRRTLIEPF..LASK.SQPQ.K.SFPLPGRKNKGNS.SE | |
| Retrocopy | ARSEKAKLWEVMVTDRRTLIEPFDFLASKFSQPQNKPSFPLPGRKNKGNSYSE |
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 .07 RPM | 146 .88 RPM |
| SRP017611_kidney | 0 .00 RPM | 8 .86 RPM |
| SRP017611_liver | 0 .00 RPM | 8 .14 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1258 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1258 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1258 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000008565 | 1 retrocopy |
retro_rnor_1258 ,
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