RetrogeneDB ID:

retro_ggor_2906

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:X:52448735..52450564(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000022085
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:GSPT1
Ensembl ID:ENSGGOG00000004071
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2906
ATGGAAGCCCCGGGGTCGGCCCCGAGCGGGGATGGAGTCTCCTCTGCGGTGGCCGAGGNNNNNNNNNNNNNNNNCCCAGC
TCGGCTTTCAGCCGTCAGCTCAACGTCAACGCCAAGCCCTTCGTGCCTAACGTACACGCCGCGGAGTTCGTGCCGTCCTT
CCTGCGGGGCCCGACTCAGCCGCCCACCCTCCCGGCCGGCTCCGGCAGCAACGATGAAACCTGCACCGGCGCGGGATACC
CTCAAGGTAAAAGGATGGGACGGGGGGCACCTGTGGAACCTTCCCGAGAGGAACCGTTAGTGTCGCTTGAAGGTTCCAAT
TCAGCCGTTACCATGGAACTTTCAGAACCTGTTGTAGAAAATGGAGAGGTGGAAATGGCCCTAGAAGAATCATGGGAGCA
CAGTAAAGAAGTAAGTGAAGCCGAGCCTGGGGGTGGTTCCTCGGGAGATTCAGGGCCCCCAGAAGAAAGTGGCCAGGAAA
TGATGGAGGAAAAAGAGGAAATAAGAAAATCCAAATCTGTGATCGTACCCTCAGGTGCACCTAAGAAAGAACACGTAAAT
GTAGTATTCATTGGCCATGTAGACGCTGGCAAGTCAACCATCGGAGGACAGATAATGTTTTTGACTGGAATGGTTGACAA
AAGAACACTGGAGAAATATGAAAGAGAAGCTAAGGAAAAAAACAGAGAAACCTGGTATTTGTCCTGGGCCTTAGATACAA
ATCAGGAGGAACGAGACAAGGGTAAAACAGTCGAAGTGGGTCGTGCCTATTTTGAAACAGAAAGGAAACATTTCACAATT
TTAGATGCCCCTGGCCACAAGAGTTTTGTCCCAAATATGATTGGTGGTGCTTCTCAAGCTGATTTGGCTGTGCTGGTCAT
CTCTGCCAGGAAAGGAGAGTTTGAAACTGGATTTGAAAAAGGTGGACAGACAAGAGAACATGCGATGTTGGCAAAAACGG
CAGGGGTAAAACATTTAATAGTGCTTATTAATAAGATGGATGATCCCACAGTAAATTGGAGCATTGAGAGATATGAAGAA
TGTAAAGAAAAACTGGTGCCCTTTTTGAAAAAAGTAGGCTTCAGTCCAAAAAAGGACATTCACTTTATGCCCTGCTCAGG
ACTGACCGGAGCAAATATTAAAGAGCAGTCAGATTTCTGCCCTTGGTACACTGGATTACCATTTATTCCGTATTTGGATA
ACTTGCCAAACTTCAACAGATCAATTGATGGACCAATAAGACTGCCAATTGTGGATAAGTACAAAGATATGGGCACTGTG
GTCCTGGGAAAGCTGGAATCCGGGTCCATTTTTAAAGGCCAGCAGCTCGTGATGATGCCAAACAAGCACAATGTAGAAGT
TCTTGGAATACTTTCTGATGATACTGAAACTGATTTTGTAGCCCCAGGTGAAAACCTCAAAATCAGACTGAAGGGAATTG
AAGAAGAAGAGATTCTTCCAGGATTCATACTTTGTGATCCTAGTAACCTCTGCCATTCTGGACGCACGTTTGATGTTCAG
ATAGTGATTATTGAGCACAAATCCATCATCTGCCCAGGTTATAATGCGGTGCTGCACATTCATACTTGTATTGAGGAAGT
TGAGATAACAGCGTTAATCTCCTTGGTAGACAAAAAATCAGGAGAAAAAAGTAAGACACGACCCCGCTTCGTGAAACAAG
ATCAAGTATGCATTGCTCGTTTAAGGACAGCAGGAACCATCTGCCTCGAGACGTTCAAAGATTTTCCTCAGATGGGTCGT
TTTACTTTAAGAGATGAGGGTAAGACCATTGCAATTGGAAAAGTTCTGAAACTGGTCCCGGAGAAGGAC

ORF - retro_ggor_2906 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.95 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 0
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalMEAPGPGPCG-GGGSLAAAAEAQRENLSAAFSRQLNVNAKPFVPNVHAAEFVPSFLRGPAAPPP-PAGGA
MEAPG..P.G.G...L...........S.AFSRQLNVNAKPFVPNVHAAEFVPSFLRGP..PP..PAG..
RetrocopyMEAPGSAPSG<GWSLLCGGRXXXXXXPSSAFSRQLNVNAKPFVPNVHAAEFVPSFLRGPTQPPTLPAGSG
ParentalANNH---GAGSGAG---GPAAPVESSQEEQSLC-EGSNSAVSMELSEPIVENGETEMSPEESWEHKEEIS
.N.....GAG...G...G..APVE.S.EE.....EGSNSAV.MELSEP.VENGE.EM..EESWEH..E.S
RetrocopySNDETCTGAGYPQGKRMGRGAPVEPSREEPLVSLEGSNSAVTMELSEPVVENGEVEMALEESWEHSKEVS
ParentalEAEPGGGSLGDGRPPEESAHEMMEEEEEIPKPKSVVAPPGAPKKEHVNVVFIGHVDAGKSTIGGQIMYLT
EAEPGGGS.GD..PPEES..EMMEE.EEI.K.KSV..P.GAPKKEHVNVVFIGHVDAGKSTIGGQIM.LT
RetrocopyEAEPGGGSSGDSGPPEESGQEMMEEKEEIRKSKSVIVPSGAPKKEHVNVVFIGHVDAGKSTIGGQIMFLT
ParentalGMVDKRTLEKYEREAKEKNRETWYRYLSWALDTNQEERDKGKTVEVGRAYFETEKKHFTILDAPGHKSFV
GMVDKRTLEKYEREAKEKNRETWY..LSWALDTNQEERDKGKTVEVGRAYFETE.KHFTILDAPGHKSFV
RetrocopyGMVDKRTLEKYEREAKEKNRETWY--LSWALDTNQEERDKGKTVEVGRAYFETERKHFTILDAPGHKSFV
ParentalPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVNWSNERYEE
PNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVNWS.ERYEE
RetrocopyPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTVNWSIERYEE
ParentalCKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSDFCPWYIGLPFIPYLDNLPNFNRSVDGPIRLPI
CKEKLVPFLKKVGF.PKKDIHFMPCSGLTGAN.KEQSDFCPWY.GLPFIPYLDNLPNFNRS.DGPIRLPI
RetrocopyCKEKLVPFLKKVGFSPKKDIHFMPCSGLTGANIKEQSDFCPWYTGLPFIPYLDNLPNFNRSIDGPIRLPI
ParentalVDKYKDMGTVVLGKLESGSICKGQQLVMMPNKHNVEVLGILSDDVETDTVAPGENLKIRLKGIEEEEILP
VDKYKDMGTVVLGKLESGSI.KGQQLVMMPNKHNVEVLGILSDD.ETD.VAPGENLKIRLKGIEEEEILP
RetrocopyVDKYKDMGTVVLGKLESGSIFKGQQLVMMPNKHNVEVLGILSDDTETDFVAPGENLKIRLKGIEEEEILP
ParentalGFILCDPNNLCHSGRTFDAQIVIIEHKSIICPGYNAVLHIHTCIEEVEITALICLVDKKSGEKSKTRPRF
GFILCDP.NLCHSGRTFD.QIVIIEHKSIICPGYNAVLHIHTCIEEVEITALI.LVDKKSGEKSKTRPRF
RetrocopyGFILCDPSNLCHSGRTFDVQIVIIEHKSIICPGYNAVLHIHTCIEEVEITALISLVDKKSGEKSKTRPRF
ParentalVKQDQVCIARLRTAGTICLETFKDFPQMGRFTLRDEGKTIAIGKVLKLVPEKD
VKQDQVCIARLRTAGTICLETFKDFPQMGRFTLRDEGKTIAIGKVLKLVPEKD
RetrocopyVKQDQVCIARLRTAGTICLETFKDFPQMGRFTLRDEGKTIAIGKVLKLVPEKD

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 14 .48 RPM 46 .08 RPM
SRP007412_cerebellum 11 .03 RPM 42 .75 RPM
SRP007412_heart 1 .66 RPM 15 .10 RPM
SRP007412_kidney 5 .56 RPM 61 .13 RPM
SRP007412_liver 6 .17 RPM 40 .75 RPM
SRP007412_testis 19 .79 RPM 89 .20 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_2906 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2906 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 25 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000095891 retrocopy
retro_amel_4,
Bos taurus ENSBTAG000000035772 retrocopies
retro_btau_1793, retro_btau_1840,
Canis familiaris ENSCAFG000000188561 retrocopy
retro_cfam_2072,
Callithrix jacchus ENSCJAG000000181911 retrocopy
retro_cjac_618,
Cavia porcellus ENSCPOG000000093811 retrocopy
retro_cpor_73,
Equus caballus ENSECAG000000211951 retrocopy
retro_ecab_739,
Echinops telfairi ENSETEG000000182491 retrocopy
retro_etel_1626,
Felis catus ENSFCAG000000222811 retrocopy
retro_fcat_1913,
Gorilla gorilla ENSGGOG00000004071 1 retrocopy
retro_ggor_2906 ,
Microcebus murinus ENSMICG000000141371 retrocopy
retro_mmur_28,
Myotis lucifugus ENSMLUG000000007921 retrocopy
retro_mluc_98,
Macaca mulatta ENSMMUG000000231781 retrocopy
retro_mmul_118,
Monodelphis domestica ENSMODG000000047281 retrocopy
retro_mdom_1420,
Mustela putorius furoENSMPUG000000145041 retrocopy
retro_mputfur_147,
Mus musculus ENSMUSG000000622031 retrocopy
retro_mmus_238,
Nomascus leucogenys ENSNLEG000000101991 retrocopy
retro_nleu_2705,
Oryctolagus cuniculus ENSOCUG000000047591 retrocopy
retro_ocun_1664,
Otolemur garnettii ENSOGAG000000070831 retrocopy
retro_ogar_100,
Pteropus vampyrus ENSPVAG000000050091 retrocopy
retro_pvam_1426,
Rattus norvegicus ENSRNOG000000023351 retrocopy
retro_rnor_2931,
Sarcophilus harrisii ENSSHAG000000059081 retrocopy
retro_shar_14,
Ictidomys tridecemlineatus ENSSTOG000000154061 retrocopy
retro_itri_109,
Tupaia belangeri ENSTBEG000000088732 retrocopies
retro_tbel_3810, retro_tbel_4659,
Tarsius syrichta ENSTSYG000000138122 retrocopies
retro_tsyr_1169, retro_tsyr_148,
Tursiops truncatus ENSTTRG000000116301 retrocopy
retro_ttru_12,


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