RetrogeneDB ID: | retro_rnor_2499 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 7:7636800..7637736(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSRNOG00000048637 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Olr952 | ||
| Ensembl ID: | ENSRNOG00000050176 | ||
| Aliases: | None | ||
| Description: | olfactory receptor Olr1022 [Source:RefSeq peptide;Acc:NP_001001075] |
Retrocopy-Parental alignment summary:
>retro_rnor_2499
ATGAAAAACTACACTATAATTACAGAGTTTGTGCTATTGGGAATATCAGGCAATAGAAAGCTTCAGGTAGTAATCTTCGT
CTTTTTATTAATAACTTACATAGTAAGCATCATTGGAAACCTAACCATCATAATGCTCACATTGCTGGACTCTCACTTAA
AGACTCCTATGTATTATTTCCTTTGTAATTTCTCCTTTTTAAGAAATTATTTTCACCAGTGTTTCCATTCCCAGATTTTA
GCATCAATAATTACTCAAGTCAAGACCATTTCCTATAATAACTGTTTGGCTCAGTTATTTTTCTTCATCTTCATGGGGGT
GACAGAAATTTTTCTTCTAACCACTATGTCTTTCGATCGCTATGTTGTCATCTGCAAGCCACTTCACTACACCCTCATCA
TGAATCAGAAAGCCTGCACCCTTTTTGTCCTCACCTCATGGCTAGCAGGATTCCTGACCATCTTCCCACCACTTATGCTG
GTCCTAAAGTTGGATTTCTGTGCTTCCAATGTCATCGACCATTTCTGCTGTGACTATTTTCCCCTTTTACAGCTGTCTTG
CTCAGACACCTGGCTCCTAGAAGTGACTGGTTTCTATGTTGCTCTGGTTTCTCTACTGTCCACGTTGGCATTGGTGATTT
TATCTTACATGTGCATTTTCAGGACTATTTTAAGAATTCCATCAGCCAGTCAGAGAAAAAAGGCTTTCTCCACCTGTTCC
TCTCACATGATTGTCATCTCCATGTCTTATGGAAGCTGTATATTTATCTATGTGAAGCCATCAGCAAATGAAAGAGCATC
ACTCACCAAAACAGTGGCTATTCTCAGCACTTCAGTTGCTCCCATGTTGAACCCTTTTATTTATACCTTGAGGAACCACC
AAGTAAAACAAGCTTTTAAAGACTTGGTTCATAAGGTAGGGTTTTACAGAAACAAA
ORF - retro_rnor_2499 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 86.58 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MKDYTIITEFVLLVISDNRELQVAIFIFLFITYTVSIIGNLTIIILTLLDSHLKTPMYYFLHNFSF-KSY |
| MK.YTIITEFVLL.IS.NR.LQV.IF.FL.ITY.VSIIGNLTII.LTLLDSHLKTPMYYFL.NFSF...Y | |
| Retrocopy | MKNYTIITEFVLLGISGNRKLQVVIFVFLLITYIVSIIGNLTIIMLTLLDSHLKTPMYYFLCNFSFLRNY |
| Parental | VHS-FHSQSLASIINKGKTISYNNCLAQLFFFIFMGGVTEFFLLAIMSYDRYVAICKPLHYTLIMNQKAC |
| .H..FHSQ.LASII...KTISYNNCLAQLFFFIFMG.VTE.FLL..MS.DRYV.ICKPLHYTLIMNQKAC | |
| Retrocopy | FHQCFHSQILASIITQVKTISYNNCLAQLFFFIFMG-VTEIFLLTTMSFDRYVVICKPLHYTLIMNQKAC |
| Parental | TLLVLTSWLAEFLTIFPPLILVLKLDFCASNVIDHFCCDYFPLLQLSCSDTWLLEVTGFYVALVTLLSTM |
| TL.VLTSWLA.FLTIFPPL.LVLKLDFCASNVIDHFCCDYFPLLQLSCSDTWLLEVTGFYVALV.LLST. | |
| Retrocopy | TLFVLTSWLAGFLTIFPPLMLVLKLDFCASNVIDHFCCDYFPLLQLSCSDTWLLEVTGFYVALVSLLSTL |
| Parental | ALVILSYMCIFRTILRIPSASQRKKAFSTCSFHKIVISMS-GSCVFMYVKPSANERASLTKTVAIFRTSV |
| ALVILSYMCIFRTILRIPSASQRKKAFSTCS.H.IVISMS.GSC.F.YVKPSANERASLTKTVAI..TSV | |
| Retrocopy | ALVILSYMCIFRTILRIPSASQRKKAFSTCSSHMIVISMSYGSCIFIYVKPSANERASLTKTVAILSTSV |
| Parental | APMLNPFIYTLRNQQVKQVFKELVHKVGFFRNK |
| APMLNPFIYTLRN.QVKQ.FK.LVHKVGF.RNK | |
| Retrocopy | APMLNPFIYTLRNHQVKQAFKDLVHKVGFYRNK |
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 .00 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_2499 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2499 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2499 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Rattus norvegicus | ENSRNOG00000050176 | 2 retrocopies |
retro_rnor_2415, retro_rnor_2499 ,
|