RetrogeneDB ID:

retro_ggor_377

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:1:37322101..37323103(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MAGT1
Ensembl ID:ENSGGOG00000010342
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_377
GCAAATATGGCAGAAGTGTGGTGGCTTTGGCGTCTACTTTTGACCATAGTGGTGGCCCTGTTATTCGTGGCTCCCGGGGT
TCCTACACATCCTTCCTGATGGAAGAAGGCGTTGGCCAAAAAGGTCAGCCAGCTGATGGATTGGACCAAGAAAGACAGAG
TGATAAGAATGAGTGACACCATGTTCTATCATTTTGTATTAGATGCACCAAAAAACTATTCTGTTATTGTGATGCTTACT
GCTCTCCACGAGTTCAGTTCATGTGTCATGTGCAAAGGTGCTGCTGAGGAATTTCAGATCTTGGCAAATTCCTATCAACG
CCCTGGTGCATTCACCACAAAGGTATTTTTTGCAATGGTGGATTATGATGAAAGCCCTGAGGTCTTTGAAGCACTCCAGG
TAACGTCAGTTCCGACTTTCTTCCACTTTTCTGCCCAATGGAAATTTGCAACAGATGACATTTATAATTTGAGAGGAAGG
GATATTGTTGCTGACCAAATGGCTGAATGGGTAGCAGAAAGAACACATGTCAGCGTCAGAATCAGACAGCCTGCAAATTA
TCATGGTCTCCTCAAGCCAGGGATACTTCTGGCTCTCATTGGTGGACTTGGGTATTTCTTGAAATGGAATAGGAAATCTA
TTTCTTGCAGAATTTTGTGCGAAGTTTTAACTCTGTGCTTTGTGATTGTGATGACGTCTGGTCAAATGTGGACTTATGTA
AGAGGAGAACCATATGTCCAGAGGGACCCTCACACAGGACATAAACATTACATCAGTAAATTTAGTCAGGCTCAGTTTGC
AGCAGAAACATTCATTATTTCCCTGTTTAATATGTGTGTTAGTCTGGGAATGGTGCTGTTAGACAAGGCTGCCACCTCTA
CGATGAACATCATAAAGAGAAAGATGATGTGTCTGGCTGGTATGTGTCTTGTTGCCATATTCTTCAGTTGGCTGTTTTCC
CTCTTTAGATTTAAAGTACCTGACTATCCATACAGCTTTGTC

ORF - retro_ggor_377 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 52.08 %
Parental protein coverage: 91.28 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalANMAARWRFWCVSVTMAVALLIVCD-VPSASAQRKKEMVLSEKVSQLMEWTNKRPVIRMNGDKFRRLVKA
ANMA..W..W....T..VALL.V...VP......KK...L..KVSQLM.WT.K..VIRM....F...V..
RetrocopyANMAEVWWLWRLLLTIVVALLFVAPGVPTHPS*WKK--ALAKKVSQLMDWTKKDRVIRMSDTMFYHFVLD
ParentalPPRNYSVIVMFTALQLHRQCVVCKQADEEFQILANSWRYSSAFTNRIFFAMVDFDEGSDVFQMLNMNSAP
.P.NYSVIVM.TAL.....CV.CK.A.EEFQILANS.....AFT...FFAMVD.DE...VF..L...S.P
RetrocopyAPKNYSVIVMLTALHEFSSCVMCKGAAEEFQILANSYQRPGAFTTKVFFAMVDYDESPEVFEALQVTSVP
ParentalTFINFPAKGKPKRGDTYELQVRGFSAEQIARWIADRTDVNIRVIRPPNYAGPLMLGLLLAVIGGLVYLRR
TF..F.A..K....D.Y.L..R...A.Q.A.W.A.RT.V..R...P.NY.G.L..G.LLA.IGGL.Y...
RetrocopyTFFHFSAQWKFATDDIYNLRGRDIVADQMAEWVAERTHVSVRIRQPANYHGLLKPGILLALIGGLGYFLK
ParentalSNMEFLFNKTGWAFAALCFVLAMTSGQMWNHIRGPPYAHKNPHTGHVNYIHGSSQAQFVAETHIVLLFNG
.N..............LCFV..MTSGQMW...RG.PY....PHTGH..YI...SQAQF.AET.I..LFN.
RetrocopyWNRKSISCRILCEVLTLCFVIVMTSGQMWTYVRGEPYVQRDPHTGHKHYISKFSQAQFAAETFIISLFNM
ParentalGVTLGMVLLCEAATSDMDIGKRKIMCVAGIGLVVLFFSWMLSIFRSKYHGYPYSFL
.V.LGMVLL..AATS.M.I.KRK.MC.AG..LV..FFSW..S.FR.K...YPYSF.
RetrocopyCVSLGMVLLDKAATSTMNIIKRKMMCLAGMCLVAIFFSWLFSLFRFKVPDYPYSFV

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 .34 RPM 6 .14 RPM
SRP007412_cerebellum 0 .16 RPM 4 .53 RPM
SRP007412_heart 0 .03 RPM 3 .00 RPM
SRP007412_kidney 0 .61 RPM 26 .01 RPM
SRP007412_liver 0 .13 RPM 19 .18 RPM
SRP007412_testis 17 .30 RPM 19 .68 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_377 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_377 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Pongo abelii retro_pabe_338

Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species Parental gene accession Retrocopies number
Gorilla gorilla ENSGGOG00000010342 1 retrocopy
retro_ggor_377 ,
Loxodonta africana ENSLAFG000000128861 retrocopy
Oryctolagus cuniculus ENSOCUG000000002031 retrocopy
Pongo abelii ENSPPYG000000204931 retrocopy



Copyright © RetrogeneDB 2014-2017