RetrogeneDB ID:

retro_ggor_276

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:1:108683408..108685187(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MATR3
Ensembl ID:ENSGGOG00000007308
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_276
ATGTCCAAGTCATTCCAGCAGTCATCTCTCAGTAGGGACTAACAGGGTCATGGGTGTGACCTGTCTGCGGCAGGCATAGG
CCTTTCTGCTGCTGTTACCCAGTCTTTAAGTATGCCAGCATCTCTTAGGAAGGATGAACCAGGGTACTGCACGCCTTGCT
AGTTGAATGAATCTTGGAACGAATTCTTCATTGAATCAAAAAGGAGCTCATAGTGCACGGTCTTCTGCTAGTACTTCTTC
CCATAATTTACACTCTATATTTAACATTGGAAGTAGAGATCCACTCCCTTTATCTTCTCAACACTGTGGAGATGCAGACC
AGGCCAGTAACATTTTGGCCAGCTTTGGTTTGTCTGCTAGAGACTTAGATGAACTGAGTCATTATCCAGAGGACAAGATG
ACTCCTGAGAATTTGCCCCAAATCCTTCTACAGCTTAAAAGGAGGAGAACTGAAGAAGGCCCTACGTTGAATTATGGTAG
AGATGACAGATCTGCTGCATGGGAGCCACCATACAGAGTACCTAGGGATGATTCGGAAGAAAAAAAGGCACTTTAGAAGA
GATAGTTTTGATGATCATGGTCCTAGTCTCAACCTGGTGCTTGATTATGATCATGGAAGTCATTCTCGAGAATCTGGTTA
TTATGACAGAACGGATTATGAAGATAACAGATTACGAGATGGAAAAAAGTTGTAGGGATGATTCTTTTTTTGGTGAGACC
TCGCGTAACTATCATAAATTTGACAGTGAGTATGAAAGAATGGGACGCGGTCATGGTCCTGACCCTTTACAAGAGAGATC
TCTCTTTGAGAAAAAGAGGGGTGCTCCTCCAAGTAGCAATATTGAAGACTTTCATGGACTCTTACTGAAAGGTTATACCC
ATCTGTGCTCTATATGTGATTTGCCAGTTCATTCTAATGAGGAGTTGAGTCAACATATCAATAGAGCAAGCCACAGTCAT
CGATGCCAGCTTCTTCTTGAAATCTACCCAGAATGGGATCCTGACAATGATACAGAACACACAATGGGTGATCCATTCAT
GTCTCAGCAGTCTACAAACCCAGCACCAGGAATTCTGGGATCTCCACCTCCCTCGTTTCATCTTGGAGGACCAGCAATTG
GACCAAGAGGAAATCTGGGTGCTGGAAATGGAAACCTGCAAAGAACTAGACACATACAAAATGGCAGAGTGGAAACGAGC
AGAGTTGTTCACATCATGGATTTTCAGTGAGGGAAAAACTTGAGATACCAGCTATTACAGCTGGTAGAACCATTTGGAGT
CATTTCAAATCATCTGATTCTAAATAAAATTAATGAGGCATTTATTGAAAGGGCAACCACAGAGGATGCTCAGGCTGCAG
TGGATTATTATACAACCACACCAGTGTTAGTATTAGGCAAGCCAGTGAGAGTTCATTTATCCCAGAAGTATAAAAGAATA
AAGAAACCTGAAGGAAAGCCAGATCAGAAGTTTGATTGAAGGCAAGAGCTTGGATGTGTGATACATCGCAGCAATTTGCC
CCATTCTGCCTATTCTGATAGTGCTGTTCTCAAGCTTGCTGAGCCTTATGGGAAAATAAAGAATTACATATTAATGAGGA
TGAAAAGTCAGGCTTTTATTGAGATGGAGACAAGAGAAGATACAATGGCAATGGTTGACCATTGTTTGAAAAAAGCCCTT
TAGTTTCAGGGGAGATGTGTGAAGGTAGACCTGTCTAAGAAATATAAAAATCTAGTACTGAGGATTCCAAACAGAGGCAT
TGATTTACTGAAAAAAGAT

ORF - retro_ggor_276 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.58 %
Parental protein coverage: 65.92 %
Number of stop codons detected: 5
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMSKSFQQSSLSRDSQGHGRDLSAAGIGLLAAATQSLSMPASL-GRMNQGTARLASLMNLGMSSSLNQQGA
MSKSFQQSSLSRD.QGHG.DLSAAGIGL.AA.TQSLSMPASL.GRMNQGTARLAS.MNLG..SSLNQ.GA
RetrocopyMSKSFQQSSLSRD*QGHGCDLSAAGIGLSAAVTQSLSMPASL>GRMNQGTARLAS*MNLGTNSSLNQKGA
ParentalHSALSSASTSSHNLQSIFNIGSRGPLPLSSQHRGDADQASNILASFGLSARDLDELSRYPEDKITPENLP
HSA.SSASTSSHNL.SIFNIGSR.PLPLSSQH.GDADQASNILASFGLSARDLDELS.YPEDK.TPENLP
RetrocopyHSARSSASTSSHNLHSIFNIGSRDPLPLSSQHCGDADQASNILASFGLSARDLDELSHYPEDKMTPENLP
ParentalQILLQLKRRRTEEGPTLSYGRDGRSATREPPYRVPRDDWEEK-RHFRRDSFDDRGPSLNPVLDYDHGSRS
QILLQLKRRRTEEGPTL.YGRD.RSA..EPPYRVPRDD.EEK.RHFRRDSFDD.GPSLN.VLDYDHGS.S
RetrocopyQILLQLKRRRTEEGPTLNYGRDDRSAAWEPPYRVPRDDSEEK>RHFRRDSFDDHGPSLNLVLDYDHGSHS
ParentalQESGYYDRMDYEDDRLRDGER-CRDDSFFGETSHNYHKFDSEYERMGRG--PGPLQERSLFEKKRGAPPS
.ESGYYDR.DYED.RLRDG...CRDDSFFGETS.NYHKFDSEYERMGRG..P.PLQERSLFEKKRGAPPS
RetrocopyRESGYYDRTDYEDNRLRDGKK>CRDDSFFGETSRNYHKFDSEYERMGRGHGPDPLQERSLFEKKRGAPPS
ParentalSNIEDFHGLLPKGYPHLCSICDLPVHSNKEWSQHINGASHSRRCQLLLEIYPEWNPDNDTGHTMGDPFML
SNIEDFHGLL.KGY.HLCSICDLPVHSN.E.SQHIN.ASHS.RCQLLLEIYPEW.PDNDT.HTMGDPFM.
RetrocopySNIEDFHGLLLKGYTHLCSICDLPVHSNEELSQHINRASHSHRCQLLLEIYPEWDPDNDTEHTMGDPFMS
ParentalQQSTNPAPGILGPPPPSFHLGGPAVGPRGNLGAGNGNLQGPRHMQKGRVETSRVVHIMDFQRGKNLRYQL
QQSTNPAPGILG.PPPSFHLGGPA.GPRGNLGAGNGNLQ..RH.Q.GRVETSRVVHIMDFQ.GKNLRYQL
RetrocopyQQSTNPAPGILGSPPPSFHLGGPAIGPRGNLGAGNGNLQRTRHIQNGRVETSRVVHIMDFQ*GKNLRYQL
ParentalLQLVEPFGVISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQKYKRIKKPEGKPD
LQLVEPFGVISNHLILNKINEAFIE.ATTEDAQAAVDYYTTTP.LV.GKPVRVHLSQKYKRIKKPEGKPD
RetrocopyLQLVEPFGVISNHLILNKINEAFIERATTEDAQAAVDYYTTTPVLVLGKPVRVHLSQKYKRIKKPEGKPD
ParentalQKFDQKQELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDAMAMVDHCLKK
QKFD..QELG.VIH.SNLPHS.YSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETRED.MAMVDHCLKK
RetrocopyQKFD*RQELGCVIHRSNLPHSAYSDSAVLKLAEPYGKIKNYILMRMKSQAFIEMETREDTMAMVDHCLKK
ParentalALWFQGRCVKVDLSEKYKKLVLRIPNRGIDLLKKD
AL.FQGRCVKVDLS.KYK.LVLRIPNRGIDLLKKD
RetrocopyAL*FQGRCVKVDLSKKYKNLVLRIPNRGIDLLKKD

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 325 .80 RPM
SRP007412_cerebellum 0 .00 RPM 262 .43 RPM
SRP007412_heart 0 .00 RPM 33 .30 RPM
SRP007412_kidney 0 .00 RPM 178 .81 RPM
SRP007412_liver 0 .00 RPM 95 .46 RPM
SRP007412_testis 0 .00 RPM 380 .21 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_276 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_276 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_199
Pan troglodytes retro_ptro_181

Parental genes homology:
Parental genes homology involve 9 parental genes, and 12 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000068881 retrocopy
Homo sapiens ENSG000000154791 retrocopy
Gorilla gorilla ENSGGOG00000007308 2 retrocopies
retro_ggor_276 , retro_ggor_421,
Nomascus leucogenys ENSNLEG000000090931 retrocopy
Oryctolagus cuniculus ENSOCUG000000263111 retrocopy
Otolemur garnettii ENSOGAG000000106071 retrocopy
Pongo abelii ENSPPYG000000158352 retrocopies
Pan troglodytes ENSPTRG000000172941 retrocopy
Rattus norvegicus ENSRNOG000000198752 retrocopies



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