RetrogeneDB ID: | retro_rnor_2639 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 8:78251681..78253047(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Akap8l | ||
| Ensembl ID: | ENSRNOG00000006355 | ||
| Aliases: | None | ||
| Description: | A-kinase anchor protein 8-like [Source:RefSeq peptide;Acc:NP_001013968] |
Retrocopy-Parental alignment summary:
>retro_rnor_2639
GGCCAGGATAACATCACCAACTATGGGTACGGTATGGCCACTTCACACTCTTGGGAAATGGCTGGCTCTGACACAAATGC
AAACCCTAAGTGCCTCAGGTAGTGCCAGCACCGATTTGGTTTTATCCAGATTTAACCAGCATGTAGATATGATAACACAC
TTGGAGACAGACATGATACAAGGAGGTGTGTACAGCTCAGAAGGTGGAGAAAGATACGACTCCTGTGAGGCCTGTGCCTC
AAGGACCATCCTGAACAAATGAGACCTCTACCGGTCGAGCTATGACTATGGCAAACTTGACCCTGAGATGGAAATGCCTA
TTAGGGTCAATATGATGCCTACCATGACCAGCTTCGAAGGCACAGAAGAGATACATTTGGTCCAAGGGCTCAGGGCTGGG
CCTGGGATGGCCAGAGTGGATAGTCAATGGCCTCAGGCTATAGGCACATGTGGGAAGACCCCATGGGAGCCTGGGGCCAG
TGCATGTCTGGCGCCTCCTGGCTGCCCTCCCTCTTTTCCCAGAACATCGTAGAGTATGGCATGCGTGGTAGGGGTGCCTT
TTCTGGTGGCTCCCGATTTGGCTTCAGATTTGGCAATGGCATGAAGCAGATGAGGCAGACATGGAAGACCTGGACCACAG
CCGACTTCCGGACCACAAAGAGGAAGAAAAGTAGGGTGACAGTCCTGATGAGTCAGACAGCAAAGCCACAAGAACAAAGT
GCTCAGACAACCGTGATTCCGACAATGACGAAGGACCTGAGGGGAAAGCTGCAGAGGTACGGAAAGCGCTGAGGCTATGG
GGAAAGGCTCCAGAGCAGGAGAGGATGAGGAGGGAAAAGAGGATGGGAGAGAAGAAGGCAAAGAAGATTCAGAGAAAAGG
GCCCTGACCGCCCAGGATGAGAGCAGCCAGGCCAAGCGCAAGTTGCACAAAAGCAAGAAGAGCCAAGACAAACAGAAAAA
GTGGCAGCGAGACTGAAAGGTGGAAAGGATCCAGTTTGTGTGTTCTCCCTGCAAATATCGGACCTTCTATGAGGATGAGA
TGTGTAGCCACCTTGACGGCAAGTTCCACAAGGAACACCTCAGATACATAGGTACCAAGCTTTCCAAGCAGACCGCCGAC
TTCCTGCAGGAATATGTCACCAACAAGACCAAGAAGACAGAGGAGCTCCAAAAAACTGTAGAGGACCTTGATGGTCTGAT
CCAACAAAGCTACAGAGACCAACCTCTGACCCAAGAAATTGCTATGGAGCATTTTGTGAAGAAGGTGGAGGAGGCCTATT
GTGCGGCCTGTGACCTTTTCATCCCCATGCAGTTTGGAATCATCCAAAAGCGTCTCAAGACTATGGACGACAACCAAAAC
CTCAGG
ORF - retro_rnor_2639 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.12 % |
| Parental protein coverage: | 72.07 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | GQDNTTNYGYGMATSHSWEMANSDTNANP-SASGSASADSVLSRINQRLDMMPHLETDMIQGGVYGSGGG |
| GQDN.TNYGYGMATSHSWEMA.SDTNANP.SASGSAS.D.VLSR.NQ..DM..HLETDMIQGGVY.S.GG | |
| Retrocopy | GQDNITNYGYGMATSHSWEMAGSDTNANP>SASGSASTDLVLSRFNQHVDMITHLETDMIQGGVYSSEGG |
| Parental | ERYDSYEACDSRAILSERDLYRSSYDYGELDPEMEM-AYEGQYDAYRDQFRMRGGDTFGPRAQGWARDAR |
| ERYDS.EAC.SR.IL...DLYRSSYDYG.LDPEMEM.AY.GQYDAY.DQ.R....DTFGPRAQGWA.D.. | |
| Retrocopy | ERYDSCEACASRTILNK*DLYRSSYDYGKLDPEMEM<AY*GQYDAYHDQLRRHRRDTFGPRAQGWAWDGQ |
| Parental | SGRPMASGYGRMWEDPMGARGQCMPGASRLPSLFSQNIIPEYGMFQGMRGGGAFSGGSRFGFGFGNGMKQ |
| SG..MASGY..MWEDPMGA.GQCM.GAS.LPSLFSQNI..EY....GMRG.GAFSGGSRFGF.FGNGMKQ | |
| Retrocopy | SG*SMASGYRHMWEDPMGAWGQCMSGASWLPSLFSQNIV-EY----GMRGRGAFSGGSRFGFRFGNGMKQ |
| Parental | MRRTWKTWTTADFRTKKKKRKQ-GGSPDEPDCKATRTDCSDNSDSDNDEGTEGEAAE-GAESAEALEKGS |
| MR.TWKTWTTADFRT.K.K....G.SPDE.D.KATRT.CSDN.DSDNDEG.EG.AAE.G.ESAEA..KGS | |
| Retrocopy | MRQTWKTWTTADFRTTKRKKSR<GDSPDESDSKATRTKCSDNRDSDNDEGPEGKAAE<GTESAEAMGKGS |
| Parental | RAEGEDEEGKEDGREEGKEDLEKGALTAQDESSQAKRKLQASKKSQDKQKKRQRDRMVERIQFVCSLCKY |
| RA.GEDEEGKEDGREEGKED.EK.ALTAQDESSQAKRKL..SKKSQDKQKK.QRD..VERIQFVCS.CKY | |
| Retrocopy | RA-GEDEEGKEDGREEGKEDSEKRALTAQDESSQAKRKLHKSKKSQDKQKKWQRD*KVERIQFVCSPCKY |
| Parental | RTFYEDEMGSHLDSKFHKEHFKYVGTKLPKQTADFLQDYVTNKTKKTEELRKTVEDLDGLIQQIYRDQDL |
| RTFYEDEM.SHLD.KFHKEH..Y.GTKL.KQTADFLQ.YVTNKTKKTEEL.KTVEDLDGLIQQ.YRDQ.L | |
| Retrocopy | RTFYEDEMCSHLDGKFHKEHLRYIGTKLSKQTADFLQEYVTNKTKKTEELQKTVEDLDGLIQQSYRDQPL |
| Parental | TQEIAMEHFVKKVEAAHCAACDLFIPMQFGIIQKHLKTMDHNRNRR |
| TQEIAMEHFVKKVE.A.CAACDLFIPMQFGIIQK.LKTMD.N.N.R | |
| Retrocopy | TQEIAMEHFVKKVEEAYCAACDLFIPMQFGIIQKRLKTMDDNQNLR |
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 | 134 .59 RPM |
| SRP017611_kidney | 0 .00 RPM | 51 .50 RPM |
| SRP017611_liver | 0 .00 RPM | 78 .26 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2639 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2639 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2639 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 | ENSRNOG00000006355 | 1 retrocopy |
retro_rnor_2639 ,
|