RetrogeneDB ID: | retro_rnor_2761 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | JH620271.1:16118..16745(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSRNOG00000048002 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Kcnmb4 | ||
| Ensembl ID: | ENSRNOG00000022297 | ||
| Aliases: | None | ||
| Description: | calcium-activated potassium channel subunit beta-4 [Source:RefSeq peptide;Acc:NP_076450] |
Retrocopy-Parental alignment summary:
>retro_rnor_2761
ATGGCGAAGCTCCGGGTGGCTTACGAGTACACGGAAGCCGAGGACAAGAGCATTCCGGCTCGGCTTGTTTCTCATCATCT
CCGGCGTCGTGTCGCTCTTCATCTTCGGCTTCTGCTGGCTGAGTCCCGCGCTGCAGGATCTGCAAGCCTTTTTAGGCCAA
TTGCACGGTGCTGTCGGTGCAGCAGATCGGCGAGGTGTTCGAGTGCACCTTCACCTGTGGCGCCGACTGCAGGGGCACCT
CGCAGTACCCCTGCGTCCAGGTCTACGTGAACAACTCTGAGTCCAATCCTAGGGCGCTGCTGCACAGCGACGAGCACCAC
GTCCTGACCAACCCCAAGTGCTCGTATATCCCTCCCTGTAAGAGAGAAAATCAGAAGAATTTGGAAAGTGTCATGAATTG
GCAACAGTACTGGAAAGATGAGATTGGTTCCCAGCCATTTACTTGCTATTTTAATCAACATCAAAGACCAGATGATGTGC
TTTGCATCGCACTCATGATGAGATTGTCCTCCTGCATTGCTTCCTTGGCCCCTGGTGACATTTGTGGTGGGGGTTCTCAT
TGTGGTCCTGACCATCTGTGCCAAGAGCTTGGCGGTCAAGGCGGAAGCCATGAAGAAGCGCAAGTTT
ORF - retro_rnor_2761 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 91.08 % |
| Parental protein coverage: | 99.52 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | MAKLRVAYEYTEAEDKSI-RLGLFLIVSGILSLFIFGFCWLSPALQDLQATA-ANCTVLSVQQIGEVFEC |
| MAKLRVAYEYTEAEDKSI.RLGLFLI.SG..SLFIFGFCWLSPALQDLQA...ANCTVLSVQQIGEVFEC | |
| Retrocopy | MAKLRVAYEYTEAEDKSI>RLGLFLIISGVVSLFIFGFCWLSPALQDLQAFL>ANCTVLSVQQIGEVFEC |
| Parental | TFTCGTDCRGTSQYPCVQVYVNNSESNSRALLHSDQHQLLTNPKCSYIPPCKRENQKNSESVMNWQQYWK |
| TFTCG.DCRGTSQYPCVQVYVNNSESN.RALLHSD.H..LTNPKCSYIPPCKRENQKN.ESVMNWQQYWK | |
| Retrocopy | TFTCGADCRGTSQYPCVQVYVNNSESNPRALLHSDEHHVLTNPKCSYIPPCKRENQKNLESVMNWQQYWK |
| Parental | DEIGSQPFTCYFNQHQRPEDVL-LQRTHDEIVLLHCFL-WPVVAFVVGVLIVVLTICAKSLAVKAEAMKK |
| DEIGSQPFTCYFNQHQRP.DVL.L.RTHDEIVLLHCFL.WP.V.FVVGVLIVVLTICAKSLAVKAEAMKK | |
| Retrocopy | DEIGSQPFTCYFNQHQRPDDVL<LHRTHDEIVLLHCFL<WPLVTFVVGVLIVVLTICAKSLAVKAEAMKK |
| Parental | RKF |
| RKF | |
| Retrocopy | RKF |
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 | 50 .26 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .07 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2761 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2761 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2761 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 | ENSRNOG00000022297 | 1 retrocopy |
retro_rnor_2761 ,
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