RetrogeneDB ID: | retro_rnor_1457 | ||
Retrocopy location | Organism: | Rat (Rattus norvegicus) | |
| Coordinates: | 19:41652318..41652687(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Cphx | ||
| Ensembl ID: | ENSRNOG00000025433 | ||
| Aliases: | None | ||
| Description: | Protein Cphx [Source:UniProtKB/TrEMBL;Acc:F1M859] |
Retrocopy-Parental alignment summary:
>retro_rnor_1457
CATGTCTTCAAAAAGAAAGGAGAAGAAGACAACTGCAGCAAAGCAAGAATGGGATATAGAAGAAGAAAAATCAAAACCGA
GACATAAATTTACTGAAGATGAACTGAAGAGACTTAAACGAGTGTTTGAACGAACTCCTCATCCAGATTTCATGACCAGG
AGGGATGAACTGGTACAACACTTTTGATGCCAAATGTCTGTGACTGCATAGCTGGTTTCAGAATAAAAGAGCTAGACCAC
CGCCAGAATTGAAAGACAAAGTCTTCTGCCATCAGAAGAACGCACAGGTGCCAAGACTACATGTTTGCAGGTCACCAGGA
TACCCCGGTACAAGTTTCCAATTGCGACAACCCTGGGCAACTCTCTTAC
ORF - retro_rnor_1457 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 54.4 % |
| Parental protein coverage: | 71.69 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | HFFPEK--EVNHSRARAGCRRG-KSKPRHKFTNDELKRLKQEFKCTPYPDF-TTRDELARQFRCQVDV-I |
| H.F..K..E.N.S.AR.G.RR..KSKPRHKFT.DELKRLK..F..TP.PDF.T.RDEL...F.CQ..V.. | |
| Retrocopy | HVFKKKGEEDNCSKARMGYRRR>KSKPRHKFTEDELKRLKRVFERTPHPDFMTRRDELVQHF*CQMSV>L |
| Parental | DNWFQNKRARTPQELKDTF-SAIRGMRKSGDYMLIGRQDTQTEEASREQYGSCDY |
| ..WFQNKRAR.P.ELKD...SAIR......DYM..G.QDT..........G...Y | |
| Retrocopy | HSWFQNKRARPPPELKDKV>SAIRRTHRCQDYMFAGHQDTPVQVSNCDNPGQLSY |
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 .14 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_1457 retrocopy.
Rattus norvegicus was not studied using FANTOM5 data.
retro_rnor_1457 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_rnor_1457 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 | ENSRNOG00000025433 | 1 retrocopy |
retro_rnor_1457 ,
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