RetrogeneDB ID:

retro_ggor_1848

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:3:51065786..51066115(+)
Located in intron of:ENSGGOG00000010636
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PHF5A
Ensembl ID:ENSGGOG00000001104
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_1848
ATGGCTAAACATCATCCTAATTTGATCTTTTGCTGCAAGCCAGCTGGTGTTGTCATCAGAAGACTGTGTGAAAAATGTGA
CAGCAAGTGTGTGATTTGTGACTCCTCTGTGCGTCCCTGCACTCTGGTGTGCTATGTGATGAGTGTAACTACGTATCTTA
GCAGGGGTGCTGTGTGATCTGTGGAGGCCCTGGGGTCTCTGGTGCCTATTACTGTAAGGAGTGCACCATCTAGGAGAAGG
ATAGAGATGGCTGCCCAAAGATTGTCAATTTGGGGAGCTCTAAGACAGACCTCTTCTATGAACACAAAAAATGCAGCTTC
AAGAAGAGG

ORF - retro_ggor_1848 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.78 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAKHHPDLIFCRKQAGVAIGRLCEKCDGKCVICDSYVRPCTLVR-ICDECNYGSYQGRCVICGGPGVSDA
MAKHHP.LIFC.K.AGV.I.RLCEKCD.KCVICDS.VRPCTLV...CDECNY.S.QG.CVICGGPGVS.A
RetrocopyMAKHHPNLIFCCKPAGVVIRRLCEKCDSKCVICDSSVRPCTLVC<LCDECNYVS*QGCCVICGGPGVSGA
ParentalYYCKECTIQEKDRDGCPKIVNLGSSKTDLFYERKKYGFKKR
YYCKECTI.EKDRDGCPKIVNLGSSKTDLFYE.KK..FKKR
RetrocopyYYCKECTI*EKDRDGCPKIVNLGSSKTDLFYEHKKCSFKKR

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 .10 RPM 9 .64 RPM
SRP007412_cerebellum 0 .16 RPM 12 .29 RPM
SRP007412_heart 0 .03 RPM 4 .07 RPM
SRP007412_kidney 0 .00 RPM 15 .01 RPM
SRP007412_liver 0 .11 RPM 8 .99 RPM
SRP007412_testis 0 .00 RPM 16 .27 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_1848 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_1848 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2647

Parental genes homology:
Parental genes homology involve 19 parental genes, and 34 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000156871 retrocopy
Canis familiaris ENSCAFG000000010901 retrocopy
Callithrix jacchus ENSCJAG000000049993 retrocopies
Echinops telfairi ENSETEG000000107411 retrocopy
Homo sapiens ENSG000001004103 retrocopies
Gorilla gorilla ENSGGOG00000001104 2 retrocopies
retro_ggor_1848 , retro_ggor_1965,
Latimeria chalumnae ENSLACG000000120941 retrocopy
Microcebus murinus ENSMICG000000135201 retrocopy
Macaca mulatta ENSMMUG000000113543 retrocopies
Mustela putorius furoENSMPUG000000163982 retrocopies
Mus musculus ENSMUSG000000613603 retrocopies
Oryctolagus cuniculus ENSOCUG000000127051 retrocopy
Otolemur garnettii ENSOGAG000000028391 retrocopy
Pongo abelii ENSPPYG000000118702 retrocopies
Pan troglodytes ENSPTRG000000144273 retrocopies
Pteropus vampyrus ENSPVAG000000011621 retrocopy
Rattus norvegicus ENSRNOG000000241703 retrocopies
Tarsius syrichta ENSTSYG000000010821 retrocopy
Tursiops truncatus ENSTTRG000000033691 retrocopy



Copyright © RetrogeneDB 2014-2017