RetrogeneDB ID: | retro_rnor_594 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 1:95873014..95873514(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSRNOG00000037367 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Caap1 | ||
| Ensembl ID: | ENSRNOG00000007299 | ||
| Aliases: | None | ||
| Description: | caspase activity and apoptosis inhibitor 1 [Source:RefSeq peptide;Acc:NP_001029326] |
Retrocopy-Parental alignment summary:
>retro_rnor_594
CAGGAGAACAGAAGTTACAGAAGATGCCCCCTGATGTGCTGAAGGCAAGGTACCAGTGTGGATTCTACTTCAACCCTGAG
AGAGAGCAAACAACCAGAAGGTTTGGAATCAAAGCAAGGAAAGGGGAAGATAGTGATGTACTCAGTATAAGCGCAAATGC
TTATAACAGCGATATAGAAGACCCAAGCAATGAAGAAGCTGCCGCCTCGGCCACCGCCGCCCCTGCTGCTACTGCTGCTT
CTGCTTCTGAGGTCCCAGAAAATACAGTCCAGAGTGAAGCTGCTCAGATAGATGATGACCTGGAGCGAGATATTGAAAAA
AGTGTGAACGAGATTTTGGGACTGGTAGAGTCTAGCCCAAAGGAACCCAAAGCGGCCGTCCTGACGATTCCTCCACCAGA
AGACGTTCAGCCTTCTGCGAAGCAACTGGGACTTCTAGAACTTGAAATGAGGGCAAGAGCGATTAAGGCTCTCATGAAAG
CTGGCGATATAAAAAGGCCA
ORF - retro_rnor_594 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.65 % |
| Parental protein coverage: | 97.7 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | EADRGSKVAPDLISQQDTCVDSTSSLRENKQPEGLESKQGKG-EDSDVLSINADAYDSDIEGPSNEEAAA |
| ...R.....P.....Q.T.VDSTS.LRE.KQPEGLESKQGKG.EDSDVLSI.A.AY.SDIE.PSNEEAAA | |
| Retrocopy | QENRSYRRCPLMC*RQGTSVDSTSTLRESKQPEGLESKQGKG<EDSDVLSISANAYNSDIEDPSNEEAAA |
| Parental | SATAAPTATAVATAASASEVPGGTVQSEAAQI-DDLERDIEKSVNEILGLVESSPKEPKAAILTVPPPED |
| SATAAP.....ATAASASEVP..TVQSEAAQI.DDLERDIEKSVNEILGLVESSPKEPKAA.LT.PPPED | |
| Retrocopy | SATAAPA----ATAASASEVPENTVQSEAAQIDDDLERDIEKSVNEILGLVESSPKEPKAAVLTIPPPED |
| Parental | VQPSAQQLELLELEMRARAIKALMKAGDIKKP |
| VQPSA.QL.LLELEMRARAIKALMKAGDIK.P | |
| Retrocopy | VQPSAKQLGLLELEMRARAIKALMKAGDIKRP |
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 | 9 .71 RPM |
| SRP017611_kidney | 0 .00 RPM | 8 .51 RPM |
| SRP017611_liver | 0 .00 RPM | 3 .23 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_594 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_594 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_594 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Myotis lucifugus | ENSMLUG00000017278 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000007299 | 1 retrocopy |
retro_rnor_594 ,
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