RetrogeneDB ID: | retro_cfam_1531 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 33:14504502..14504807(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | UQCRB | ||
| Ensembl ID: | ENSCAFG00000009449 | ||
| Aliases: | None | ||
| Description: | ubiquinol-cytochrome c reductase binding protein [Source:HGNC Symbol;Acc:12582] |
Retrocopy-Parental alignment summary:
>retro_cfam_1531
GTTGCAGCATCAAGCCAGTGGCTGGAGGACATTTGAAAGTGGTATTACAATGCTGCAGGGTTCAATAAACTGGGGTTAAT
GGAGATGATACAATATGAGAATGACGATGTGAAAGAGGCCATAAGTAGGCTTCCTGAGAACCTTTATAACGACAGATGTT
TCACGGTAAGAGGGCACTGGACCTGACCAGGAGGCATCAGATCTTGCCTAAGGAGCAGTGGACAAAATATGAGGATAATT
CTACCTTGGACTATATCTGAAAGAAGTTATTTGGGAAAGAAAGGAGTTAGGAATGGGCAAAGAAA
ORF - retro_cfam_1531 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 67.92 % |
| Parental protein coverage: | 99.06 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | VAASSRWLEGIRKWYYNAAGFNKLGLMRDDTIYENEDVKEAIRRLPENLYNDR-MFRIKRALDLTMRHQI |
| VAASS.WLE.I.KWYYNAAGFNKLGLM.....YEN.DVKEAI.RLPENLYNDR.MF..KRALDLT.RHQI | |
| Retrocopy | VAASSQWLEDI*KWYYNAAGFNKLGLM-EMIQYENDDVKEAISRLPENLYNDR<MFHGKRALDLTRRHQI |
| Parental | LPKEQWTKYEEDKFYLEPYLKEVIRERKEREEWAKK |
| LPKEQWTKYE........Y............EWAKK | |
| Retrocopy | LPKEQWTKYEDNSTL--DYI*KKLFGKERS*EWAKK |
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 |
|---|---|---|
| SRP012049_cerebellum | 0 .00 RPM | 47 .46 RPM |
| SRP017611_brain | 0 .00 RPM | 28 .18 RPM |
| SRP017611_kidney | 0 .00 RPM | 105 .59 RPM |
| SRP017611_liver | 0 .00 RPM | 28 .86 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_1531 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1531 was not experimentally validated.