RetrogeneDB ID: | retro_rnor_2609 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 8:8161819..8162315(-) | ||
| Located in intron of: | ENSRNOG00000007038 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Hspb8 | ||
| Ensembl ID: | ENSRNOG00000022392 | ||
| Aliases: | Hspb8, Cryac, Hsp22 | ||
| Description: | Heat shock protein beta-8 [Source:UniProtKB/Swiss-Prot;Acc:Q9EPX0] |
Retrocopy-Parental alignment summary:
>retro_rnor_2609
GAAGGGCAATTGCCTTTCCCATGCTCCTACCCAAGCCGCTTGGCTGAGACCCCTTCTAGAACTCACTGCTCTCTTTCTGC
CTGGGGACAATGGCTTTGGCATGGACACCTTCCCAGATGACTTGACAGCCCCTTGGCCCGAGTGGACTTTGCCTCAGCTT
TCCTCTGCCTGGCCTGGAACGCTAAGGTCTGGCATGGTACCCCGAGAGCCTACAGCCACAGACAGGTCCAAGGTGCCTGC
TGAGGGCAGGAGCTCCCCACCATTCCCTGGGGAGCCCTGGAAAGTGTGTGTCAACATGCACAGCTTCAAGCCAGAAGAGC
TGATGGTAAAGACCAAGGATGGATACATGGAAGTGTCAGGCATCCAGCAGGAAGGTGGGATTGTCTCCAGGAACTTTACC
AAGAAAATACAGTTTCCTGCAGAAGTGGATCCAGTGGCCGCATTTCTCACTTCTTTAGAGGGTCTGCTCGTCATTGAGGC
TCCCCAAGTCCCTCCT
ORF - retro_rnor_2609 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 77.46 % |
| Parental protein coverage: | 87.24 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | DGQLPFPCSYPSRLRR-DPFRDSPLSSRLL-DDGFGMDPFPDDLTAPWPEWALPRLSSAWPGTLRSGMVP |
| .GQLPFPCSYPSRL...DPF..S.LS..L..D.GFGMD.FPDDLTAPWPEW.LP.LSSAWPGTLRSGMVP | |
| Retrocopy | EGQLPFPCSYPSRLAE<DPF*NSLLSFCLG<DNGFGMDTFPDDLTAPWPEWTLPQLSSAWPGTLRSGMVP |
| Parental | RGPTATARFGVPAEGRNPPPFPGEPWKVCVNVHSFKPEELMVKTKDGYVEVSGKHEEKQQEGGIVSKNFT |
| R.PTAT.R..VPAEGR..PPFPGEPWKVCVN.HSFKPEELMVKTKDGY.EVSG...E....GGIVS.NFT | |
| Retrocopy | REPTATDRSKVPAEGRSSPPFPGEPWKVCVNMHSFKPEELMVKTKDGYMEVSGIQQE----GGIVSRNFT |
| Parental | KKIQLPAEVDPVTVFASLSPEGLLIIEAPQVPP |
| KKIQ.PAEVDPV..F...S.EGLL.IEAPQVPP | |
| Retrocopy | KKIQFPAEVDPVAAFLT-SLEGLLVIEAPQVPP |
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 | 19 .20 RPM |
| SRP017611_kidney | 0 .00 RPM | 2 .72 RPM |
| SRP017611_liver | 0 .00 RPM | 44 .51 RPM |
Rattus norvegicus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_rnor_2609 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_2609 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_2609 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 | ENSRNOG00000022392 | 1 retrocopy |
retro_rnor_2609 ,
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