RetrogeneDB ID:

retro_ggor_1825

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:3:12408436..12409344(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ACTB
Ensembl ID:ENSGGOG00000001133
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_1825
CCCATTGAGCATGGCATCGTCATCAACTGGGATGACATGAAGAAGATTTGGCACCACACCTTCTACAATGAGTTGCGTGT
GGCCCCGGAGGAGCACCTGGTGCTGCTGACGGAGGCCCTTGTGAACCCCAAGGCCAACAGAGAGAAGATGACCCAGATCA
TGTTTGAGACCTTCAACACCCTGTCCATGTACGTGGCCATCCAGGCCATGCTGTCCCTCTATGCCTCTGGATGCACCACT
GGCATTGTTATGGACCCTGGAGATGGGGTCACTCATACAGTGCCCATCTACGAGGCCTAAGCCCTCCCCCATGCCGTCCT
GCATCCGGACCTGGCTGGTGGGGACCTGACTGACTACCTCATGAAGATCCTCACCGAGCCCAGCTACAGCTTCAACACCA
TGGCTGAGTGGGAGATCATGGGTGACATCAAGGAGAAGCCGTGCTATGTTGCCCTGGACTTCGAACAGGAGATGGCCACC
GCTGCATCCTCCTCCTCTCTGGAGAAGAGATAGGAGCTGCCTGACAGCCTGGTCATCACCATTGGCAACGAGTGGTCCTG
GTGTCTGGAGGCGCTGTTATAGCCTTCCTTCCTGGGCATGGAATCTTGTGGCATCCATGAGACCACCTTCAACTCCATCA
TGAAGTGTGATGTGGACATCTGCAAAGACCTACATGCCAACAAGGTGCTGTCCAGTGGCACTACCATGTACCCGGGCATC
ACCAACAGGATGCAGAAGGCAATCACTGCCCTGGCACCCAGCACCATGAAGATCAAGATCATCGCGCCCCCAGAGCGCAA
GTACTCTGTGTGGATCTGCAGCTCCATCCTGGCCTCACTGTCCATCTTCCAGCAGATGTGGATTAGCAAGCAGGAGTACA
ACAAGTTGGCCCCTCCATCGTCCACCGC

ORF - retro_ggor_1825 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.21 %
Parental protein coverage: 80.37 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalPIEHGIVTNWDDMEKIWHHTFYNELRVAPEEHPVLLTEAPLNPKANREKMTQIMFETFNTPAMYVAIQAV
PIEHGIV.NWDDM.KIWHHTFYNELRVAPEEH.VLLTEA..NPKANREKMTQIMFETFNT..MYVAIQA.
RetrocopyPIEHGIVINWDDMKKIWHHTFYNELRVAPEEHLVLLTEALVNPKANREKMTQIMFETFNTLSMYVAIQAM
ParentalLSLYASGRTTGIVMDSGDGVTHTVPIYEGYALPHAILRLDLAGRDLTDYLMKILTERGYSFTTTAEREIV
LSLYASG.TTGIVMD.GDGVTHTVPIYE..ALPHA.L..DLAG.DLTDYLMKILTE..YSF.T.AE.EI.
RetrocopyLSLYASGCTTGIVMDPGDGVTHTVPIYEA*ALPHAVLHPDLAGGDLTDYLMKILTEPSYSFNTMAEWEIM
ParentalRDIKEKLCYVALDFEQEMATAASSSSLEKSYELPDGQVITIGNERFRCPEALFQPSFLGMESCGIHETTF
.DIKEK.CYVALDFEQEMATAASSSSLEK..ELPD..VITIGNE...C.EAL..PSFLGMESCGIHETTF
RetrocopyGDIKEKPCYVALDFEQEMATAASSSSLEKR*ELPDSLVITIGNEWSWCLEALL*PSFLGMESCGIHETTF
ParentalNSIMKCDVDIRKDLYANTVLSGGTTMYPGIADRMQKEITALAPSTMKIKIIAPPERKYSVWIGGSILASL
NSIMKCDVDI.KDL.AN.VLS.GTTMYPGI..RMQK.ITALAPSTMKIKIIAPPERKYSVWI..SILASL
RetrocopyNSIMKCDVDICKDLHANKVLSSGTTMYPGITNRMQKAITALAPSTMKIKIIAPPERKYSVWICSSILASL
ParentalSTFQQMWISKQEYD-ESGPSIVHR
S.FQQMWISKQEY....GPSIVHR
RetrocopySIFQQMWISKQEYN<QVGPSIVHR

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 .05 RPM 1553 .47 RPM
SRP007412_cerebellum 0 .16 RPM 976 .01 RPM
SRP007412_heart 0 .00 RPM 356 .23 RPM
SRP007412_kidney 0 .00 RPM 1454 .29 RPM
SRP007412_liver 0 .00 RPM 1317 .16 RPM
SRP007412_testis 0 .31 RPM 692 .36 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_1825 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1825 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2605
Pan troglodytes retro_ptro_1756
Pongo abelii retro_pabe_2308

Parental genes homology:
Parental genes homology involve 21 parental genes, and 94 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000066011 retrocopy
Cavia porcellus ENSCPOG000000134671 retrocopy
Homo sapiens ENSG000000756246 retrocopies
Gallus gallus ENSGALG000000096211 retrocopy
Gorilla gorilla ENSGGOG00000001133 18 retrocopies
Gorilla gorilla ENSGGOG000000140436 retrocopies
Loxodonta africana ENSLAFG000000091671 retrocopy
Meleagris gallopavo ENSMGAG000000039602 retrocopies
Macaca mulatta ENSMMUG000000111531 retrocopy
Mustela putorius furoENSMPUG000000166122 retrocopies
Mus musculus ENSMUSG000000295807 retrocopies
Ornithorhynchus anatinus ENSOANG000000077162 retrocopies
Otolemur garnettii ENSOGAG000000083481 retrocopy
Petromyzon marinus ENSPMAG000000041611 retrocopy
Pongo abelii ENSPPYG0000001733623 retrocopies
Rattus norvegicus ENSRNOG0000003425410 retrocopies
Sarcophilus harrisii ENSSHAG000000126944 retrocopies
Sus scrofa ENSSSCG000000075851 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000068682 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000147973 retrocopies
Xenopus tropicalis ENSXETG000000251161 retrocopy



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