RetrogeneDB ID:

retro_ggor_1352

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:17:56491655..56494283(-)
Located in intron of:ENSGGOG00000015352
Retrocopy
information
Ensembl ID:ENSGGOG00000027447
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:OFD1
Ensembl ID:ENSGGOG00000006453
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_1352
ATGATGGCTCAGTCCAACATGCTCCCCGTGGCTGATGTGTTGAGTCAAAATGAACTGCGCAAAAAGCTATACCAGACATT
TAAGGATCGGGGTATACTGGACACACTCAAGATACAACTTCGAAACCAGCTAATTCATGAGTTAATGCACCCTGTATTGA
GTGGAGAACTGCAACCTCAGTCCATTTCAGTGCAAGGGAGCTCCCTCTTAATAAGTGCCTCTAACTCTTTAGTGGCAGAT
CACTTACAAAGATGTGGCTATGAATATTCACTTTCTGTTTTCTTTCCAGAAAGTGGTTTGGCAAAAGAAAAGATATTTAC
TATGCAGGATCTATTACAACTCATTAAAATCAACCCTACTTCCAGTCTGTACAAATCACTGGTTTCAGGAGCTGATAAAG
AAAACCAAAAAGGTTTTCTTATGCATTTTTTAAAAGAATTGGCAGAATATCATCAAGCTAAAGAGAGCTGTAATATGGAA
ACTCAGACAAGTTCGACATTTAGCAGAGATTCTCTGGCTGAGAAGCTTCAGCTTATTGATGATCAGTTTGCAGATGCTTA
CCCTCAGCGTATCAAGTTCGAGTCTTTAGAAATAAAGCTAAATGAATATAAGAGAGAAATAGAAGAGCAACTTCGGGAAG
AAATGTGTCAAAAGTTGAAGTTTTTTAAAGATACCGAAATAGGAAAAATTAAAATGGAAGCAAAAAAAAAGTATGAGAAG
GAATTAGCCGTGTTCCAGAATGATTTTGAGAAAGCTTGTCAAGCAAAATCTGAAGCCCTCGTTATTCGGGAAAAGAGCAC
CCTTGAGAGAATTCAAAAGCACCAAGAGATTGAAACAAAAGAGATTTATGCTCAAAGGCAACTTTTACTAAAAGATATGG
ATTTGTTAAGAGGAAGAGAAGCAGAGCTGAAGCAAAGAGTTGAAGCTTTTGAACTGAACCAGAAGCTCCAGGAAGAAAAA
CATAAAAGCATGACTGAGGCACTTAGGAGACGGGAGCAGAATATAAAGAGTTTTGAGAAGACCTATGACCAAAAACTCAA
GAATGAACTTCTAAAGTATCAACTTGAACTAAAGGACGACTACATCATTAGAACTAATCGACTGATTGAAGATGAAAGGA
AGAATAAAGAAAAAGCTGTTCATTTGCAAGAGGAGCTCATAGCTTTTAATTCAAAAAAGGAGGAACTCAATCAATCTATA
AATCGCATGAAAGAACTTGAGCTTGAGTTAGAGTCTGTCAAAGCCCAGACTTTGGCAATAACAAAACAAAACCATATGCT
GAATGAAAAGGTTAAAGTGATGAGTGACTATTCACTACTAAAAGAAGAGAGACTGGAGCTTCTGGCACAAAATAAATTAC
TTAAACAACAACTGGAAGAGAGTAGAAATGAAAACTTGCGTCTCCTAAACCACCTAGCTCAGCCGGCTCCTGAACTTGCG
GTCTTTCAGAAAGAACTACGGAAAGCAGAAAAGGCTACAGTGGTTGAGCATGAGGAGTTCGAAAGCCGCAAACAAGCTCT
GCACAAACAACTGCAAGATGAAATTGAGCATACTACACAGTTGAAGGCCCAGATACTAGGTTACAAAGTTTCCATAAAGA
GGTTAACTATTCAGGTTGCCGATTTAAAATCGCAACTGAAGCAAACTCAGACAGCCCTAGAGAATGAAGTGTACTGCAAT
CCAAAGCAGTCTGTGATCCATCATTCTGCCAATGGATTAATAAATGGCAACATGGTGCTTCACAATGGTGAGATAAGTGG
GGATTTCTTGAACAATCCTTTTAAACAGGAAAAAGTTCTAGCAGGTATGGTTGCATCAAGGATCACAAATTATCCAAATG
CAGGGATGGAGGGTAGTTCCCCTGATTCTGACCTTGAGTTTGTCGCCAATACTAATGCAAGGGTCAAAGAGCTTCAGCAA
GAGGCCGAACGCTTGGAAAAGGCTTTCAGAAGTTACCATCGGAGAGACATTAAAAACTCTGCCAAAGGCCCACTACCAGC
AAAGAGCCCACCATCTCTGCACTTGCTGGAAGCCTTCAAAAACATTACTTCCAGTTCCCCGGAAAGACGTATTTTTGCAG
AGGACAGAGTTGTCTCTGAGCAGCCTCAAGTGGGCACACTTAAAGAAGAAAGGAATGACATCTTGGAAGCCCTGACAGGC
AGTGCAGCCTCAAGGCTACGCGGGGGCACTTCCTCCAGACGCCACTCCTCCACACCCCTTCCAAAAGCAAAAAGAAGCCT
TGAAAGTGAAATATATCTGGAAGGTCTGGGCAGATCACACATTGCTTCCCCCAGTCCTTGTCCTGACAGAATGCCCCCGC
CATCACCTGCTGAGTCTAGGCACAACCTCTCCATCCCTCCCTTCTCCAGCCCTCCGCAGCAGAAAGCGGGTCTTTATTGG
AGACAAAATGAACTTCAAGACAAAAGTGAATTTTCAGATGCGGACAAGCTAGCTTTTAAGGATAACGAGGAATTTGAATC
ATCTTTTGAATATGCACGGAATGTGCCAAGGCAGTTTGAAATGGATGGGCCCTCTCCTGCCGGGGATATGCTTCATATGG
GCGCAGCTGTAGCTGCTGTGCCCCTCTCGTATCAGCACCCAAGTGTAGATCAGAAACAAATTGAAGAA

ORF - retro_ggor_1352 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.07 %
Parental protein coverage: 86.55 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMMAQSNMFTVADVLSQDELRKKLYQTFKDRGILDTLKTQLRNQLIHELMHPVLSGELQPRSISVEGSSLL
MMAQSNM..VADVLSQ.ELRKKLYQTFKDRGILDTLK.QLRNQLIHELMHPVLSGELQP.SISV.GSSLL
RetrocopyMMAQSNMLPVADVLSQNELRKKLYQTFKDRGILDTLKIQLRNQLIHELMHPVLSGELQPQSISVQGSSLL
ParentalIGASNSLVADHLQRCGYEYSLSVFFPESGLAKEKVFTMQDLLQLIKINPTSSLYKSLVSGSDKENQKGFL
I.ASNSLVADHLQRCGYEYSLSVFFPESGLAKEK.FTMQDLLQLIKINPTSSLYKSLVSG.DKENQKGFL
RetrocopyISASNSLVADHLQRCGYEYSLSVFFPESGLAKEKIFTMQDLLQLIKINPTSSLYKSLVSGADKENQKGFL
ParentalMHFLKELAEYHQAKESCNMETQTSSTFNRDSLAEKLQLIDDQFADAYPQRIKFESLEIKLNEYKREIEEQ
MHFLKELAEYHQAKESCNMETQTSSTF.RDSLAEKLQLIDDQFADAYPQRIKFESLEIKLNEYKREIEEQ
RetrocopyMHFLKELAEYHQAKESCNMETQTSSTFSRDSLAEKLQLIDDQFADAYPQRIKFESLEIKLNEYKREIEEQ
ParentalLRAEMCQKLKFFKDTEIAKIKMEAKKKYEKELTMFQNDFEKACQAKSEALVLREKSTLERIHKHQEIETK
LR.EMCQKLKFFKDTEI..........YEKEL..FQNDFEKACQAKSEALV.REKSTLERI.KHQEIETK
RetrocopyLREEMCQKLKFFKDTEIXXXXXXXXXXYEKELAVFQNDFEKACQAKSEALVIREKSTLERIQKHQEIETK
ParentalEIYAQRQLLLKDMDLLRGREAELKQRVEAFELNQKLQEEKHKSITEALRRREQNIKSFEETYDRKLKNEL
EIYAQRQLLLKDMDLLRGREAELKQRVEAFELNQKLQEEKHKS.TEALRRREQNIKSFE.TYD.KLKNEL
RetrocopyEIYAQRQLLLKDMDLLRGREAELKQRVEAFELNQKLQEEKHKSMTEALRRREQNIKSFEKTYDQKLKNEL
ParentalLKYQLELKDDYIIRTNRLIEDERKNKEKAVHLQEELIAINSKKEELNQSVNRVKELELELESVKAQSLAI
LKYQLELKDDYIIRTNRLIEDERKNKEKAVHLQEELIA.NSKKEELNQS.NR.KELELELESVKAQ.LAI
RetrocopyLKYQLELKDDYIIRTNRLIEDERKNKEKAVHLQEELIAFNSKKEELNQSINRMKELELELESVKAQTLAI
ParentalTKQNHMLNEKVKEMSDYSLLKEEKLELLAQNKLLKQQLEESRNENLRLLNRLAQPAPELAVFQKELRKAE
TKQNHMLNEKVK.MSDYSLLKEE.LELLAQNKLLKQQLEESRNENLRLLN.LAQPAPELAVFQKELRKAE
RetrocopyTKQNHMLNEKVKVMSDYSLLKEERLELLAQNKLLKQQLEESRNENLRLLNHLAQPAPELAVFQKELRKAE
ParentalKAIVVEHEEFESRRQALHKQLQDEIEHSAQLKAQILGYKASVKSLTTQVADLKLQLKQTQTALENEVYCN
KA.VVEHEEFESR.QALHKQLQDEIEH..QLKAQILGYK.S.K.LT.QVADLK.QLKQTQTALENEVYCN
RetrocopyKATVVEHEEFESRKQALHKQLQDEIEHTTQLKAQILGYKVSIKRLTIQVADLKSQLKQTQTALENEVYCN
ParentalPKQSVIDRSVNGLINGNVVPCNGEISGDFLNNPFKQENVLARMVASRITNDPTAWVEGSSPDSDLEFVAN
PKQSVI..S.NGLINGN.V..NGEISGDFLNNPFKQE.VLA.MVASRITN.P.A..EGSSPDSDLEFVAN
RetrocopyPKQSVIHHSANGLINGNMVLHNGEISGDFLNNPFKQEKVLAGMVASRITNYPNAGMEGSSPDSDLEFVAN
ParentalTKARVKELQQEAERLEKAFRSYHRRVIKNSAKSPLAAKSPPSLHLLEAFKNITSSSPERHIFGEDRVVSE
T.ARVKELQQEAERLEKAFRSYHRR.IKNSAK.PL.AKSPPSLHLLEAFKNITSSSPER.IF.EDRVVSE
RetrocopyTNARVKELQQEAERLEKAFRSYHRRDIKNSAKGPLPAKSPPSLHLLEAFKNITSSSPERRIFAEDRVVSE
ParentalQPRVGTL-EERNDVVEALTGSAASRLHGGTSSRRLSSTPLPKAKRSLESEMYLEGLGRSHIASPSPCPDR
QP.VGTL.EERND..EALTGSAASRL.GGTSSRR.SSTPLPKAKRSLESE.YLEGLGRSHIASPSPCPDR
RetrocopyQPQVGTLKEERNDILEALTGSAASRLRGGTSSRRHSSTPLPKAKRSLESEIYLEGLGRSHIASPSPCPDR
ParentalMPLPSPTESRHSLSIPPVSSPPEQKVGLYRRQTELQDKSEFSDVDKLAFKDNEEFESSFESAGNVPRQLE
MP.PSP.ESRH.LSIPP.SSPP.QK.GLY.RQ.ELQDKSEFSD.DKLAFKDNEEFESSFE.A.NVPRQ.E
RetrocopyMPPPSPAESRHNLSIPPFSSPPQQKAGLYWRQNELQDKSEFSDADKLAFKDNEEFESSFEYARNVPRQFE
ParentalMGGLSPAGDMSHVDAAAAAVPLSYQHPSVDQKQIEE
M.G.SPAGDM.H..AA.AAVPLSYQHPSVDQKQIEE
RetrocopyMDGPSPAGDMLHMGAAVAAVPLSYQHPSVDQKQIEE

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

(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 .05 RPM 11 .27 RPM
SRP007412_cerebellum 0 .20 RPM 26 .32 RPM
SRP007412_heart 0 .06 RPM 6 .07 RPM
SRP007412_kidney 0 .29 RPM 33 .69 RPM
SRP007412_liver 0 .08 RPM 19 .78 RPM
SRP007412_testis 2 .59 RPM 23 .62 RPM

ChIP-Seq - click to see more details

Gorilla gorilla was not studied using ChIP-Seq data.

EST - click to see more details

Gorilla gorilla was not studied using EST data.

TSS - click to see more details

Gorilla gorilla was not studied using FANTOM5 data.

Lab - click to see more details

retro_ggor_1352 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1352 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3164
Pan troglodytes retro_ptro_2274
Parental genes homology:
Parental genes homology involve 6 parental genes, and 6 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000039791 retrocopy
retro_cjac_2845,
Callithrix jacchus ENSCJAG000000354271 retrocopy
retro_cjac_2844,
Homo sapiens ENSG000000466511 retrocopy
retro_hsap_3164,
Gorilla gorilla ENSGGOG00000006453 1 retrocopy
retro_ggor_1352 ,
Nomascus leucogenys ENSNLEG000000091801 retrocopy
retro_nleu_2496,
Pan troglodytes ENSPTRG000000216751 retrocopy
retro_ptro_2274,


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