RetrogeneDB ID:

retro_ggor_2188

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:5:81285019..81285735(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000022927
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:PSME2
Ensembl ID:ENSGGOG00000016025
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2188
ATGGCCAAGCCTTGTGGGGTGCGCCTGAGCGGAGAAGCCCTTAAACAGGCGGAGGTCTTCAGGCAGAATCTTTTCCAGGA
GGCTGAAGAATTCCTCTGCGGATTCTTGCCACGGAAAATCATATATCTGAATCAGCTCTTGCAAGAGGACTCCCTCAATG
TGGCTGACCTGACTTCCCTCCGGGCCCCACTGGACGTCCCCATCCCAGACCCTCCACCCAAGGATGATGAGATGGAAACA
GATAAGCAGGAGAAGAAAGAAGTCCCTAAGTGTGGATTTCTCCCTGGGAATGAGAAAGTCCTGTCCCTCTTTGCCCTGGT
TAAGCCAGAAGTCTGGACTCTCAAAGAGAAATGCATTCTGGTGATTACGTGGATCCAACACCTGATCCCCAAGATTGACG
ATGGAAATGAGTTTGGGGTAGCAATCCAGGAGAAGGTGCTGGAGAGGGTGAATGCCGTCGAGACCAAAGTGGAAGCTTTC
CAGACAACCATTTCCAAATACTTCTCAGAACATGGGGATGCTGTGGCCAAGGCCTCCGAGGAGACTCATGTAATGGATTA
CCGGGCCTTGGTGCATGAGCGAGATGAGGCAGCCTGTGGGGAGCTCAGGGCCATGGTGCTGGACCTGAGGGCCTTCTATG
CTGAGCTTTATCATTCATCAGCAGCAACTTGGAGAAAATTGTCAACCCAAAGGGTGAAGAGAAGCCATCTATGTAC

ORF - retro_ggor_2188 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 92.95 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAKPCGVRLSGEARKQVEVFRQNLFQEAEEFLYRFLPQKIIYLNQLLQEDSLNVADLTSLRAPLDIPIPD
MAKPCGVRLSGEA.KQ.EVFRQNLFQEAEEFL..FLP.KIIYLNQLLQEDSLNVADLTSLRAPLD.PIPD
RetrocopyMAKPCGVRLSGEALKQAEVFRQNLFQEAEEFLCGFLPRKIIYLNQLLQEDSLNVADLTSLRAPLDVPIPD
ParentalPPPKDDEMETDKQEKKEVPKCGFLPGNEKVLSLLALVKPEVWTLKEKCILVITWIQHLIPKIEDGNDFGV
PPPKDDEMETDKQEKKEVPKCGFLPGNEKVLSL.ALVKPEVWTLKEKCILVITWIQHLIPKI.DGN.FGV
RetrocopyPPPKDDEMETDKQEKKEVPKCGFLPGNEKVLSLFALVKPEVWTLKEKCILVITWIQHLIPKIDDGNEFGV
ParentalAIQEKVLERVNAVKTKVEAFQTTISKYFSECGDAVAKASKETHYLMDYRALVHERDEAAYGELRAMVLDL
AIQEKVLERVNAV.TKVEAFQTTISKYFSE.GDAVAKAS.ETH..MDYRALVHERDEAA.GELRAMVLDL
RetrocopyAIQEKVLERVNAVETKVEAFQTTISKYFSEHGDAVAKASEETH-VMDYRALVHERDEAACGELRAMVLDL
ParentalRAFYAELYH-IISSNLEKIVNPKGEEKPSMY
RAFYAELYH..ISSNLEKIVNPKGEEKPSMY
RetrocopyRAFYAELYH<FISSNLEKIVNPKGEEKPSMY

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 .05 RPM 17 .98 RPM
SRP007412_cerebellum 2 .32 RPM 31 .05 RPM
SRP007412_heart 1 .28 RPM 18 .07 RPM
SRP007412_kidney 6 .26 RPM 66 .20 RPM
SRP007412_liver 4 .91 RPM 67 .03 RPM
SRP007412_testis 2 .80 RPM 28 .08 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_2188 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2188 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3222
Pan troglodytes retro_ptro_2172
Pongo abelii retro_pabe_2669

Parental genes homology:
Parental genes homology involve 9 parental genes, and 29 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000071673 retrocopies
Homo sapiens ENSG000001009114 retrocopies
Gorilla gorilla ENSGGOG00000016025 4 retrocopies
Macaca mulatta ENSMMUG000000124734 retrocopies
Mus musculus ENSMUSG000000791971 retrocopy
Nomascus leucogenys ENSNLEG000000152604 retrocopies
Otolemur garnettii ENSOGAG000000165841 retrocopy
Pongo abelii ENSPPYG000000056844 retrocopies
Pan troglodytes ENSPTRG000000061964 retrocopies



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