RetrogeneDB ID: | retro_ggor_2451 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 6:93263253..93263888(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSGGOG00000025294 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | COPS5 | ||
| Ensembl ID: | ENSGGOG00000016289 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_2451
TCCTCAGCGATGGTGACATCCAGGAGTGGTATGGTCTGAAAAACCTGGGAACTGGCCAACAACGTGCAAGAAACTCAGAG
TATCCATGAAATCTACAAATAGACAAGAAGCAGCAGCATGAAATCCTGGCAACAAAGCCCTGGGTTAACAATCACCATTA
CTTTAAAGTACTGCAAAATCTCAGCATTAGCTCTACTGAAGATGATGATGCATGCCAGGTCAGGGGGCAACTTGGAAGTG
ATGGGTTTGATGCCAGAAAAGGTAGATGGTGAAACCACGATTATTATGGGCAGTTTTACTTTGCCTGTGGAGGGCACTGA
AACCCTAGAAAATGGTGAGGCTGCTGCATATGAGTACATGGCCACATACACAGAAAATGCCAAAAAGGTTGGCCGCCTTA
AAAATGCAATTGGATGGTATTATAGGCACCCTGGCCATGGCTGCTGGCTTTCTGGCATCATGTTAGTACTCAGCTGCTCA
ATAAGCGGTTCCAGGAACCATTTACAGCAGTGGTGATTGATCCAACAAGAACAATATCTGCAGGGAAGGTGAATCTTGAT
GCCTTTAGGACATACCCAAAGGGCTACAAACCTCTTGATGAAGGACCTTCTGAGTACCAGACTATCCCGCTTAAT
ORF - retro_ggor_2451 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 74.88 % |
| Parental protein coverage: | 61.99 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | SSAMAASGSGMAQKTWELANNMQEAQSIDEIYK-YDKKQQQEILAAKPWTKDHHYFK-YCKISALALLKM |
| SSAM..S.SGM..KTWELANN.QE.QSI.EIYK..DKKQQ.EILA.KPW...HHYFK.YCKISALALLKM | |
| Retrocopy | SSAMVTSRSGMV*KTWELANNVQETQSIHEIYK<IDKKQQHEILATKPWVNNHHYFK>YCKISALALLKM |
| Parental | VMHARSGGNLEVMGLMLGKVDGETMIIMDSFALPVEGTETRVNAQAAAYEYMAAYIENAKQVGRLENAIG |
| .MHARSGGNLEVMGLM..KVDGET.IIM.SF.LPVEGTET..N..AAAYEYMA.Y.ENAK.VGRL.NAIG | |
| Retrocopy | MMHARSGGNLEVMGLMPEKVDGETTIIMGSFTLPVEGTETLENGEAAAYEYMATYTENAKKVGRLKNAIG |
| Parental | WYHSHPGYGCWLSGI-DVSTQMLNQQFQEPFVAVVIDPTRTISAGKVNLGAFRTYPKNSKLPQAVPSKGP |
| WY..HPG.GCWLSGI..VSTQ.LN..FQEPF.AVVIDPTRTISAGKVNL.AFRTYPK..K.....PS... | |
| Retrocopy | WYYRHPGHGCWLSGI<HVSTQLLNKRFQEPFTAVVIDPTRTISAGKVNLDAFRTYPKGYKPLDEGPSEYQ |
| Parental | FLMVN |
| ....N | |
| Retrocopy | TIPLN |
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 |
|---|---|---|
| SRP007412_brain_prefrontal_cortex | 0 .72 RPM | 36 .16 RPM |
| SRP007412_cerebellum | 0 .75 RPM | 26 .67 RPM |
| SRP007412_heart | 0 .41 RPM | 17 .57 RPM |
| SRP007412_kidney | 1 .47 RPM | 38 .19 RPM |
| SRP007412_liver | 0 .47 RPM | 25 .01 RPM |
| SRP007412_testis | 3 .63 RPM | 134 .47 RPM |
Gorilla gorilla was not studied using ChIP-Seq data.
Gorilla gorilla was not studied using EST data.
Gorilla gorilla was not studied using FANTOM5 data.
retro_ggor_2451 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_2451 has 4 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_3634 |
| Pan troglodytes | retro_ptro_2457 |
| Pongo abelii | retro_pabe_2980 |
| Callithrix jacchus | retro_cjac_2454 |
Parental genes homology:
Parental genes homology involve 5 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000004632 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000016289 | 1 retrocopy |
retro_ggor_2451 ,
|
| Microcebus murinus | ENSMICG00000011042 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000007838 | 1 retrocopy | |
| Mustela putorius furo | ENSMPUG00000010175 | 1 retrocopy |