RetrogeneDB ID:

retro_ggor_1191

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:15:28227529..28229089(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000022889
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:SPPL2A
Ensembl ID:ENSGGOG00000013154
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_1191
ATGGGGCCGCAGCGGCGGCTGTCCCCTGCCACGGCCGCCCTGCTCTGGGGCTTCCTGCTCCAGCTGACAGCCGCTCAGGA
AGCAATCTTGCATGCGTCTGGAAAGGGCACATCCAAGGACTACTGCATGCTTTATAACCCCCATTGGTCAGCTCTTCCAA
GTACCCTGGAAAATGCAACTTCCATTAGTTTGATGAATCTGACTTCCGCACCACTGTGCAACCTTTCTGATGTTCCTCCT
GTTGACATAAAGAACAAAGCAGTTGTGGTGCAATGGGGAAGCTGCCATTTTCTTGAAAACGCCAGAATTGCACAGAAAAG
AGGTGCTGAAGCCATGTTGGTTGTCAATAACAGTATCCTATTTCCTACCTCAGGTAACAGATCTGAATTTCCTGATGTGA
AAATACTGATTGCATTTATAAGTGACAAAGACTTTATAGATATGAAGCAGACTCTAGGAAATAACATTACTGTGAAAATG
TATTCTCCATCGTGGCCTAACTTTGATTATACTATGGTGGTTATTTTTGTAATTGCTGTGTTCACTGTGGCATTAGGTGG
ATACTGGAGTGGACTAGTTGAATTGGAAAACTTGAAAGCAGTGACAACTGAAGATAGATAAATGAGGGAAAAAAAGGAAG
AATATCTAACTTTTAGTCCTCTTACAGTTGTAATATTTGTGGTCATCTACTGTGTTATGATGGTCTTACTTTATTTCTTC
CACAAATGGTTAGTTTATGTTATGATAGCAATTTTCTGCATAGTATCAGCAATGAGTCTGTACAACTCTCTTGCTGCACT
AATTCATAAGATACCATATGGACAATGCACAATTGAGTGTCGCGGCAAAAGCATGGAAGTGAGACTTATTTTTCTCTCTG
GACTGTGTATAGCAATAGCTATTGTTTGGGTTGTGTTTTGAAATGAAGACAGGTGGGCTTGGATTTTACAAGATATTTTG
GAGATTGCTTTCTGTCTGAATTTAATTAAAACACTGAAGTTGCCCAGCTTCAAGTCATGTGTGAGACTTCTAGGCCTTCT
CCTCCTCTATGATGTATTTTTTGTTTTCATAACACCATTCATCACAAAGAATGGTGAGAGTATCATGGTTGAACTTGCAG
CTGGACCTTTTGAAAATACTGAAACATTGCCAGTAGTCATCAGAGTACCAAAGCTGATCTGTTTCTCAGTAATGAGTGTG
TGCATCATGCCTGTTTCAATATTGGGCTTTGGAGACATTATTGTACAGGCTTGTTGCTTGCGTACTGTAGAAGAGTTGAT
GTTTAGACTGGTTCTTCCTATATATACTATGTTTCCTCTACAGTTGCCTGTGCTATTGGCATGATACTTACATTTGTTGT
TCTGGTGCTGATGAAAAAGGGGCAACCTGCTCTCCTCTATTTAGTACCTTGCACACTTATTATTGCCTCAGTTTGTTGCC
TGGAAATGTAAGGAAATGAAAAAGTTCTGGAAAGGTAACAGCTATCAGATGATGGACCATCTGTATTATGCAAAAAATGA
AGAAAACCCTGTGATGTCTGGTGAACAGATTGTCCAGCAA

ORF - retro_ggor_1191 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.04 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMGPQRRLSPAGAALLWGFLLPLTAAQEAILHASGNGTTKDYCMLYNPYWTALPSTLENATSISLMNLTST
MGPQRRLSPA.AALLWGFLL.LTAAQEAILHASG.GT.KDYCMLYNP.W.ALPSTLENATSISLMNLTS.
RetrocopyMGPQRRLSPATAALLWGFLLQLTAAQEAILHASGKGTSKDYCMLYNPHWSALPSTLENATSISLMNLTSA
ParentalPLCNLSDIPPVGIKSKAVVVPWGSCHFLEKARIAQKGGAEAMLVVNNSVLFPPSGNRSEFPDVKILIAFI
PLCNLSD.PPV.IK.KAVVV.WGSCHFLE.ARIAQK.GAEAMLVVNNS.LFP.SGNRSEFPDVKILIAFI
RetrocopyPLCNLSDVPPVDIKNKAVVVQWGSCHFLENARIAQKRGAEAMLVVNNSILFPTSGNRSEFPDVKILIAFI
ParentalSYKDFRDMNQTLGDNITVKMYSPSWPNFDYTMVVIFVIAVFTVALGGYWSGLVELENLKAVTTEDREMRK
S.KDF.DM.QTLG.NITVKMYSPSWPNFDYTMVVIFVIAVFTVALGGYWSGLVELENLKAVTTEDR.MR.
RetrocopySDKDFIDMKQTLGNNITVKMYSPSWPNFDYTMVVIFVIAVFTVALGGYWSGLVELENLKAVTTEDR*MRE
ParentalKKEEYLTFSPLTVVIFVVICCVMMVLLYFFYKWLVYVMIAIFCIASAMSLYNCLAALIHKIPYGQCTIAC
KKEEYLTFSPLTVVIFVVI.CVMMVLLYFF.KWLVYVMIAIFCI.SAMSLYN.LAALIHKIPYGQCTI.C
RetrocopyKKEEYLTFSPLTVVIFVVIYCVMMVLLYFFHKWLVYVMIAIFCIVSAMSLYNSLAALIHKIPYGQCTIEC
ParentalRGKNMEVRLIFLSGLCIAVAVVWAVFRNEDRWAWILQDILGIAFCLNLIKTLKLPNFKSCVILLGLLLLY
RGK.MEVRLIFLSGLCIA.A.VW.VF.NEDRWAWILQDIL.IAFCLNLIKTLKLP.FKSCV.LLGLLLLY
RetrocopyRGKSMEVRLIFLSGLCIAIAIVWVVF*NEDRWAWILQDILEIAFCLNLIKTLKLPSFKSCVRLLGLLLLY
ParentalDVFFVFITPFITKNGESIMVELAAGPFGNNEKLPVVIRVPKLIYFSVMSVCLMPVSILGFGDIIV-PGLL
DVFFVFITPFITKNGESIMVELAAGPF.N.E.LPVVIRVPKLI.FSVMSVC.MPVSILGFGDIIV..GLL
RetrocopyDVFFVFITPFITKNGESIMVELAAGPFENTETLPVVIRVPKLICFSVMSVCIMPVSILGFGDIIV<TGLL
ParentalIAYCRRFDVQTGSSYIYYVSSTVAYAIGMILTFVVLVLMKKGQPALLYLVPCTLITASV-VAWRRKEMKK
.AYCRR.DV.TGSSYIYYVSSTVA.AIGMILTFVVLVLMKKGQPALLYLVPCTLI.ASV.VAW..KEMKK
RetrocopyLAYCRRVDV*TGSSYIYYVSSTVACAIGMILTFVVLVLMKKGQPALLYLVPCTLIIASV>VAWKCKEMKK
ParentalFWKGNSYQMMDHLDYATNEENPVISGEQIVQQ
FWKGNSYQMMDHL.YA.NEENPV.SGEQIVQQ
RetrocopyFWKGNSYQMMDHLYYAKNEENPVMSGEQIVQQ

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 .00 RPM 3 .50 RPM
SRP007412_cerebellum 0 .04 RPM 3 .59 RPM
SRP007412_heart 0 .00 RPM 2 .94 RPM
SRP007412_kidney 0 .04 RPM 23 .02 RPM
SRP007412_liver 0 .00 RPM 19 .07 RPM
SRP007412_testis 0 .10 RPM 10 .46 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_1191 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1191 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1566
Pan troglodytes retro_ptro_1054
Pongo abelii retro_pabe_1293

Parental genes homology:
Parental genes homology involve 7 parental genes, and 7 retrocopies.

Species Parental gene accession Retrocopies number
Dipodomys ordii ENSDORG000000089461 retrocopy
Homo sapiens ENSG000001386001 retrocopy
Gorilla gorilla ENSGGOG00000013154 1 retrocopy
retro_ggor_1191 ,
Gorilla gorilla ENSGGOG000000162451 retrocopy
Pongo abelii ENSPPYG000000064721 retrocopy
Pan troglodytes ENSPTRG000000070701 retrocopy
Rattus norvegicus ENSRNOG000000116521 retrocopy



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