RetrogeneDB ID:

retro_ptro_3266

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:X:125888473..125889236(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:FBLIM1
Ensembl ID:ENSPTRG00000000208
Aliases:None
Description:filamin binding LIM protein 1 [Source:HGNC Symbol;Acc:24686]


Retrocopy-Parental alignment summary:






>retro_ptro_3266
ATGGCCTCAAAGCCTGAGAAGAGTGTGGCATCGTCTGTCTTTATCACCCTTGCACCCCTGTGCCGCGATTTAGCTGTGGT
TGAGGAAGGGAGGCAGGCGGTTTGTGAGGCCTGATGTGGCCTCCCCTGGGAGGCTCCTGCCCCCATGAAGGCACCCGGAG
CTGGCTTAGCGGGAAAGCCCAGCCCCTGGGCACCCCCTGGCAGGGCTGCAGCCACAGTGCCAGCTGCACCTCTGCAGCTC
TCCAATGGAGGATGCTCACCCCCTCCTCCTGTCCTGGATGGTGAGGACGCACTTCCTGACCTGGACCTCGTCCCACCCCC
TCCACTGCCCCCTCCAGTGCTCCTGTCTTCTGAAGAAGAGGCTCCTGCTCCAATGGGGGCCTCACTCATTGCAGACTTAG
AGCAGTTGCACCTGCCCTCGCCCCCACCCCGACCACAGGCCCCAGTGGAGGGACCTTCAGTCCAGCCTGGGCCCAGTCCC
CTCAGGCCTGGGGAGGAAGAGCTTCCGCCTTCCCCAGCAGAGCCTGTTGAGAGAGAGTCGTCCACAGACATCTGTGCCTT
CTGCCACAAAACCGTGTCCTCCCCAAGAGCTGGCTGTGGAGGCCATAAAGAGGCAGTACCATGCCCAGTGCTTCACGTGG
CACACCTGCCACCGCCAGCTAGCTGGGCAGAGCTTCTACCAGGATGGGCGACCCCTCTGCGAACCCTGCTACCAGGACAC
GCTGGAGAAGTGCGGCAAGTGTGGCCAGGTGGTCCGGGAACAC

ORF - retro_ptro_3266 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.59 %
Parental protein coverage: 67.65 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMASKPEKRVASSVFITLAPPRRDVAVAEEVRQAVCEARRGRPWEAPAPMKTPEAGLAGRPSPWTTPGRAA
MASKPEK.VASSVFITLAP..RD.AV.EE.RQAVCEA..G.PWEAPAPMK.P.AGLAG.PSPW..PGRAA
RetrocopyMASKPEKSVASSVFITLAPLCRDLAVVEEGRQAVCEA*CGLPWEAPAPMKAPGAGLAGKPSPWAPPGRAA
ParentalATVPAAPMQLSNGGCPPPPPVLDGEDVLPDLDLLPPPPPPPPVLLPSEEEAPAPMGASLIADLEQLHLSP
ATVPAAP.QLSNGGC.PPPPVLDGED.LPDLDL.PPPP.PPPVLL.SEEEAPAPMGASLIADLEQLHL..
RetrocopyATVPAAPLQLSNGGCSPPPPVLDGEDALPDLDLVPPPPLPPPVLLSSEEEAPAPMGASLIADLEQLHLPS
ParentalPPPPPQAPAEGPSVQ--PCPLRPVEEELPPPPAEPVEKGASTDICAFCHKTVS-PRELAVEAMKRQYHAQ
PPP.PQAP.EGPSVQ..P.PLRP.EEELPP.PAEPVE...STDICAFCHKTVS.P.ELAVEA.KRQYHAQ
RetrocopyPPPRPQAPVEGPSVQPGPSPLRPGEEELPPSPAEPVERESSTDICAFCHKTVS>PQELAVEAIKRQYHAQ
ParentalCFTCRTCRRQLAGQSFYQKDGRPLCEPCYQDTLERCGKCGEVVRDH
CFT..TC.RQLAGQSFYQ.DGRPLCEPCYQDTLE.CGKCG.VVR.H
RetrocopyCFTWHTCHRQLAGQSFYQ-DGRPLCEPCYQDTLEKCGKCGQVVREH

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 0 .79 RPM
SRP007412_cerebellum 0 .00 RPM 3 .30 RPM
SRP007412_heart 0 .00 RPM 10 .49 RPM
SRP007412_kidney 0 .00 RPM 9 .52 RPM
SRP007412_liver 0 .00 RPM 3 .08 RPM
SRP007412_testis 0 .00 RPM 0 .11 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_3266 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_3266 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_3266 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_4898
Gorilla gorilla retro_ggor_3058
Pongo abelii retro_pabe_3809
Macaca mulatta retro_mmul_2635

Parental genes homology:
Parental genes homology involve 7 parental genes, and 12 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000187251 retrocopy
Homo sapiens ENSG000001624582 retrocopies
Gorilla gorilla ENSGGOG000000151902 retrocopies
Macaca mulatta ENSMMUG000000322432 retrocopies
Pongo abelii ENSPPYG000000018372 retrocopies
Pan troglodytes ENSPTRG00000000208 2 retrocopies
retro_ptro_3266 , retro_ptro_544,
Pteropus vampyrus ENSPVAG000000090001 retrocopy



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