RetrogeneDB ID: | retro_rnor_1926 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 3:147361504..147362055(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Bcl2l12 | ||
| Ensembl ID: | ENSRNOG00000020486 | ||
| Aliases: | None | ||
| Description: | bcl-2-like protein 12 [Source:RefSeq peptide;Acc:NP_001101950] |
Retrocopy-Parental alignment summary:
>retro_rnor_1926
ATGGCCGACTCTGAAGAGTTGGGTCTCCAAGAGGACACACTGAAGGTTCTGACTGCCTTCCTTAGGTGCAGTGAAGCTGC
TGGGTCCCCTATCCCAACTCCACCCAAGAACCCTGCCCAAGAAGAGACAACAGATTTCCTGAGCTTCCCCTAAAGATGCC
TCCCTTGTCCCCTGGGAAGAGGAGGTCCTTCCCTTGGGTCCTCTAGGCCCTGCTGCCTTCCCCTCCGCCACTGTTATGGT
TCGGAGCCTGGCCCAGCCACTCCAGACTTCTATGCCCTGGTTGCCCAGCGTCTGGAACAGCTGGTACAGAAGCAACTCAA
GTCTCCGCCCACCTCAAAGATTCAGGGACCCCCCCTCCCACGGAGAAGGAAGCCCTGCTAAGCAGGCTGGTAGCCTTGAT
GGAGGAGGAGGCGGAAGTCATCAACCAAAAGCTGGCATCTGACCCAGCTCTGCATCATAAACTGGCCCTCCTGTCAGAAG
GCTCTTTCGCCCACCTTGTGGAACTCTTCTCTAGCCCGAGGGGCAGCTCCTCCCCAAACTGCTCAAGCCCC
ORF - retro_rnor_1926 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.08 % |
| Parental protein coverage: | 71.76 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MAGSEELGLQEDTLKVLTAFLRRGETAGSPVPTPPRSPAQEETTDFLSRLRRCLPCPLGREAPPPESSRP |
| MA.SEELGLQEDTLKVLTAFLR..E.AGSP.PTPP..PAQEETTDFLS...RCLPCPLGR..P...SSRP | |
| Retrocopy | MADSEELGLQEDTLKVLTAFLRCSEAAGSPIPTPPKNPAQEETTDFLSFP*RCLPCPLGRGGPSLGSSRP |
| Parental | CFLPLRPCYGSEPGPASSDFYALVAQRLEQLVQEQLKSPPSSEIQGPP-PTEK-EALLRRLVALLEEEAE |
| C.LPLR.CYGSEPGPA..DFYALVAQRLEQLVQ.QLKSPP.S.IQGPP.P....EALL.RLVAL.EEEAE | |
| Retrocopy | CCLPLRHCYGSEPGPATPDFYALVAQRLEQLVQKQLKSPPTSKIQGPPLPRRR<EALLSRLVALMEEEAE |
| Parental | VINQKLASDPALHRKLARLSAGSFARLVELFSSRGGSSSPNCSSP |
| VINQKLASDPALH.KLA.LS.GSFA.LVELFSS..GSSSPNCSSP | |
| Retrocopy | VINQKLASDPALHHKLALLSEGSFAHLVELFSSPRGSSSPNCSSP |
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 .86 RPM |
| SRP017611_kidney | 0 .00 RPM | 2 .65 RPM |
| SRP017611_liver | 0 .00 RPM | 1 .82 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_1926 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1926 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1926 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macaca mulatta | ENSMMUG00000003926 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000020486 | 2 retrocopies |
retro_rnor_1926 , retro_rnor_726,
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