RetrogeneDB ID: | retro_ggor_1473 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 19:23325092..23326147(-) | ||
| Located in intron of: | ENSGGOG00000023529 | ||
Retrocopy information | Ensembl ID: | ENSGGOG00000026936 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SNX32 | ||
| Ensembl ID: | ENSGGOG00000010801 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_1473
AATGTAAATCTTCAAAGTGATCCTGCTCTGCTGGTGGACATTTCTGATGCCCTTAGTGAGTGGAATAAAGTAAAATTCAC
CGTTCACACAAAGAGTTTATTGCCAAATTTTAAACAAAATGAGTTTTCTGTTGTTCAGCAACATGAGCAATTTATCTGGC
TTCATGATTCCTTTGTTAAAAATGAAGACTATGCAGGTTACATCATTCCACCAGCACCACCAAGAGCTGATTTTGATGCT
TCAAGGGAAAAAGTACAGAAGCTTGGAGAAGGAGAAGGGTCAATGACAAAGGAAGAATTCACAAAGATGAAACAGGAACT
GGAAGCTGAATATTTGGGAATATCCAAGAACACAGTTGTGATGCATGAAGTGTTCCTATGTCATGTGACAGCACATCCTA
TTTTGAGAAAATATTTAAATTTCCATGTCTTCTTGGAATATAATCAAGATTTGAGTGTGCAAGGAAAAATAAAAAGAGAA
ACTTGAAGATTTCTTTAAAAACATGGTTAAATCAGCAGATGGAGTAATTGTTTCCGGAGTAAAGGATGTAGATAATTTCT
TTGAGCATGAACAAACATTTCTTTTAGAATATCATAACCGAGATAAGGATGCATCTGCTAAATCATAGAATGACAAGATC
CCACAAAAGTGCTGCAGATGATTACAATAGAATTGGTTCTTCATTATATGCTTTAGGAACTCGGGATTCTACAGATATAT
GCAAGTTTTTTCTCAAAGTTTCAGAAATGTTTGATAAAACAAGAAAAATAGAAGCATGAGTGTCTGCTGATGAGGACCTC
AAACTTTCTGACCCTTAAAAATATTACTTAAGAGAATCTCAAGCTGCTAAGGATCTCCTGTATTGAAGGTCTAGGTCACT
AGTGGATTATGAAAATGCTAATAAAGCCCTGGATAAAGCAAGAGCAAAAAATAAAGATGTTCTGCTGGCTAAAACTTCCC
AACAATTATGTAGTCAGAAATTTGAAAAAAAAAAATCTCAGTCTGCAAAACAAGAACTTATAGATTTTAAGACAAGAAGC
ATTGCTGCATTCAGG
ORF - retro_ggor_1473 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.56 % |
| Parental protein coverage: | 88.09 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | SVDLQGDSSLQVEISDAVSERDKVKFTVQTKSCLPHFAQTEFSVVRQHEEFIWLHDAYVENEEYAGLIIP |
| .V.LQ.D..L.V.ISDA.SE..KVKFTV.TKS.LP.F.Q.EFSVV.QHE.FIWLHD..V.NE.YAG.IIP | |
| Retrocopy | NVNLQSDPALLVDISDALSEWNKVKFTVHTKSLLPNFKQNEFSVVQQHEQFIWLHDSFVKNEDYAGYIIP |
| Parental | PAPPKPDFEASREKLQKLGEGDSSVTREEFAKMKQELEAEYLAIFKKTVAMHEVFLQRLAAHPTLRRDHN |
| PAPP..DF.ASREK.QKLGEG..S.T.EEF.KMKQELEAEYL.I.K.TV.MHEVFL....AHP.LR...N | |
| Retrocopy | PAPPRADFDASREKVQKLGEGEGSMTKEEFTKMKQELEAEYLGISKNTVVMHEVFLCHVTAHPILRKYLN |
| Parental | FFVFLEYGQDLSVRG-KNRKELLGV-FLRNIVKSADEALITGMSGLKEVDDFFEHERTFLLEYH-TRIRD |
| F.VFLEY.QDLSV.G.KN.K..L...F..N.VKSAD.......SG.K.VD.FFEHE.TFLLEYH.T.IR. | |
| Retrocopy | FHVFLEYNQDLSVQG<KNKKRNLKI<FFKNMVKSADGVIV---SGVKDVDNFFEHEQTFLLEYH>TEIRM |
| Parental | ACLRADRVMRAHKCLADDYIPISAALSSLGTQEVNQLRTSFLKLAELFERLRKLEGRVASDEDLKLSDML |
| ..L...R..R.HK..ADDY..I...L..LGT.........FLK..E.F...RK.E..V..DEDLKLSD.. | |
| Retrocopy | HLLN-HRMTRSHKSAADDYNRIGSSLYALGTRDSTDICKFFLKVSEMFDKTRKIEA*VSADEDLKLSDP* |
| Parental | RYYMRDSQAAKDLLYRRLRALADYENANKALDKARTRNREVRPAESHQQLCCQRF-ERLSDSAKQELMDF |
| .YY.R.SQAAKDLLY.R.R.L.DYENANKALDKAR..N..V..A...QQLC.Q.F....S.SAKQEL.DF | |
| Retrocopy | KYYLRESQAAKDLLY*RSRSLVDYENANKALDKARAKNKDVLLAKTSQQLCSQKFXXXXSQSAKQELIDF |
| Parental | KSRRVSSFR |
| K.R....FR | |
| Retrocopy | KTRSIAAFR |
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 | 1 .34 RPM | 36 .35 RPM |
| SRP007412_cerebellum | 1 .81 RPM | 8 .98 RPM |
| SRP007412_heart | 0 .91 RPM | 0 .09 RPM |
| SRP007412_kidney | 4 .54 RPM | 0 .29 RPM |
| SRP007412_liver | 3 .64 RPM | 0 .08 RPM |
| SRP007412_testis | 6 .11 RPM | 3 .42 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_1473 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_1473 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000172803 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000008953 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000010801 | 1 retrocopy |
retro_ggor_1473 ,
|
| Macaca mulatta | ENSMMUG00000019017 | 1 retrocopy |