RetrogeneDB ID: | retro_ggor_606 | ||
Retrocopy location | Organism: | Gorilla (Gorilla gorilla) | |
| Coordinates: | 10:107201925..107203269(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSGGOG00000004954 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PIP5K1A | ||
| Ensembl ID: | ENSGGOG00000026610 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ggor_606
GAGACAACCTCATCAGCCTTGAAAGGTGCCATCCAGTTAGGCATTACCCACACTGTGGGGAGCCTGAGTACCAAACCAGA
GAGTGATGTCCTCATGCAAGATTTCCACATGGTGGAGAGTACCTTCTTTCCCAGTGAAGGGAGCAACCTGACCCCTGCTC
ATCACTACAATGACTTTCGTTTCAAGACCTATGCACCTGTTGCCTTCCGCTACTTCTGGAAGCTATTTGGTATCCGGCCC
GATGATTACTTGTATTCCCTCTGCAGTGAGCCGCTGATTGAACTCTGTAGCTCTGGAGCTAGTGGTTCCCTGTTCTATGT
GTCCAGCGACGATGAGTTCATTATTAAGACAGTCTGACATAAAGAGGCGGAGTTTCTGCAGAAGCTGCTTCCAGGATACT
ACATAAACCTCAACCAGAACCCTCGGACTTTGCTGCCTAAATTCTATGGACTGTACTGTGTGCAGGCAGGTGGCAAGAAC
ATTCGGATTGTGGTGATGAACAATCTTTCACCAAGATCGGTAAAAATGCATATCAAATATGACCTCAAAGGCTCAACGTA
CAAACGGCGGGCTTCCCAGAAAGAGCGAGAGAAGCCTCTTCCCACATTTAAAGACCTAGACTTCTTACAAGACATCCCTG
ATGGTCTTTTTTTGGATGCTGACGTGCACAACGCTCTCTGTAAGACCCTGCAGCGTGACTGTTTGGTGCTGCAGAGCTTC
AAGATAATGGATTATAGCCTCTTGATGTCAATCCATAATATAGATCAGGCACAACGAGAGCCCTTAAGCAGCGAAACACA
ATACTCAGTTGATACTCGAAGACCAGCCCCCCAAAAGGCTCTGTATTCCACAGCCATGGAATCCATCCAGGGAGAGGCTC
GACGGGGTGGCACCATGGAGACCGATGACCATATGGGTGGCATCCCTGCCCGGAATAGTAAAGGGGAAAGGCTTCTGCTT
TATATTGGCATCATTGACATTCTACAGTCTTACAGGTTTGTTAAGAAGTTGGAGCACTCTTGGAAAGCCCTGGTACATGA
TGGAGACACTGTCTCAGTGCATCGCCCAGGCTTCTATGCTGAATGGTTCCAGCGCTTCATGTGCAACACAGTATTTAAGA
AGATTCCCTTGAAGCCTTCTCCTTCCAAAAAACTTTGGTCTGGCTCATCTTTCTCTCAGCGAGCAGGCTCCAGTGGCAAC
TCCTGCATGACTTACCAGCCATTGGTCTCTGGGGAACACAAGGCACAAGTGACAACAAAGGCGGAAGTGGAGCCAGGCGT
TCACCTTGGTCGTCCTGATGTTTTACCTCAGACTCCACCTTTGGAGGAAATCAGTGAGGGCTCA
ORF - retro_ggor_606 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.97 % |
| Parental protein coverage: | 86.68 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | KTTSTALKGAIQLGITYTVGSLSTKPERDVLMQDFYVVESIFFPSEGSNLTPAHHYNDFRFKTYAPVAFR |
| .TTS.ALKGAIQLGIT.TVGSLSTKPE.DVLMQDF..VES.FFPSEGSNLTPAHHYNDFRFKTYAPVAFR | |
| Retrocopy | ETTSSALKGAIQLGITHTVGSLSTKPESDVLMQDFHMVESTFFPSEGSNLTPAHHYNDFRFKTYAPVAFR |
| Parental | YFRELFGIRPDDYLYSLCSEPLIELCSSGASGSLFYVSSDDELIIKTLQHKEAEFLQKLLPGYYLNLSQN |
| YF..LFGIRPDDYLYSLCSEPLIELCSSGASGSLFYVSSDDE.IIKT..HKEAEFLQKLLPGYY.NL.QN | |
| Retrocopy | YFWKLFGIRPDDYLYSLCSEPLIELCSSGASGSLFYVSSDDEFIIKTV*HKEAEFLQKLLPGYYINLNQN |
| Parental | PRTLLPKFFGLYCVQTGGKNIRIVVMNNLLPRSVKMHIKYDLKGSTYKRRASQKEREKPLPTFKDLDFLQ |
| PRTLLPKF.GLYCVQ.GGKNIRIVVMNNL.PRSVKMHIKYDLKGSTYKRRASQKEREKPLPTFKDLDFLQ | |
| Retrocopy | PRTLLPKFYGLYCVQAGGKNIRIVVMNNLSPRSVKMHIKYDLKGSTYKRRASQKEREKPLPTFKDLDFLQ |
| Parental | DIPDGLFLDADMYNALCKTLQRDCLVLQSFKIMDYSLWLSIHNIDHAQREPLSSDTLQVSIDTQRLAPQK |
| DIPDGLFLDAD..NALCKTLQRDCLVLQSFKIMDYSL..SIHNID.AQREPLSS.T.Q.S.DT.R.APQK | |
| Retrocopy | DIPDGLFLDADVHNALCKTLQRDCLVLQSFKIMDYSLLMSIHNIDQAQREPLSSET-QYSVDTRRPAPQK |
| Parental | ALYSTAMEFIQGEARLGDTMEADDHMGGIPAQNSKGERLLLYIGIIDILQSYTFLKKLEHSWKAVVHDGD |
| ALYSTAME.IQGEAR.G.TME.DDHMGGIPA.NSKGERLLLYIGIIDILQSY.F.KKLEHSWKA.VHDGD | |
| Retrocopy | ALYSTAMESIQGEARRGGTMETDDHMGGIPARNSKGERLLLYIGIIDILQSYRFVKKLEHSWKALVHDGD |
| Parental | TVSVHRPGFYAERFQHFMCNAVFKKIPLKPSPSKKFRSGLSFSPHTGSSGNSCITYQPLVSEEYKSQVIT |
| TVSVHRPGFYAE.FQ.FMCN.VFKKIPLKPSPSKK..SG.SFS...GSSGNSC.TYQPLVS.E.K.QV.T | |
| Retrocopy | TVSVHRPGFYAEWFQRFMCNTVFKKIPLKPSPSKKLWSGSSFSQRAGSSGNSCMTYQPLVSGEHKAQVTT |
| Parental | KVQVEPGVHLGRSDVLPQNPPLEEISEGS |
| K..VEPGVHLGR.DVLPQ.PPLEEISEGS | |
| Retrocopy | KAEVEPGVHLGRPDVLPQTPPLEEISEGS |
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 .25 RPM | 2 .97 RPM |
| SRP007412_cerebellum | 1 .38 RPM | 2 .05 RPM |
| SRP007412_heart | 0 .28 RPM | 0 .53 RPM |
| SRP007412_kidney | 1 .35 RPM | 1 .59 RPM |
| SRP007412_liver | 0 .61 RPM | 0 .71 RPM |
| SRP007412_testis | 4 .87 RPM | 14 .81 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_606 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ggor_606 has 3 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_716 |
| Pan troglodytes | retro_ptro_511 |
| Pongo abelii | retro_pabe_619 |
Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Gorilla gorilla | ENSGGOG00000026610 | 2 retrocopies |
retro_ggor_2566, retro_ggor_606 ,
|
| Otolemur garnettii | ENSOGAG00000002846 | 1 retrocopy |