RetrogeneDB ID:

retro_ggor_911

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:13:952336..952912(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000027000
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:FAM58A
Ensembl ID:ENSGGOG00000027073
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_911
ATGGAGGCAAGTGTCAAGCTAGGGATGCGGTCCATTCCCATTGCCACTGCTTGCACCATTTACCGTAAGTTCTTCTGCGA
GACCAGCCTGGACGCCTGTGACCCTTACCTGATTGCCATGTTTTCCATTTACTTGGCCGGCAAAGTGGAAGAGCAGCACC
TGCAGACTCGTGACATCATCAATGTGTCCAACAAGTACTTTAACCCAAGCGGTGAGCCCCTGGAATTGGACTCCCGCTTC
CGGGAGCTCCGGGACAGCATTGTGCAGTGTCAGCTTCTCATGCTGAGAGTTCTGCGCTTCCAGGTCTCCTTCCAGCATCC
ACACAAGTACCTGCTCCACTACCTGGTTTCCCTCAAGAACTGGCTGAACCGCCACAGCTGGCAGCGGACCCCCGTTGCCG
TCACTGCCTGGGCCCTGCTGCGGGACAGCTACCACAGGGGTCTGTGCCTCCGCTTCCAGGACCAGCACATCGCCGTGGCG
GTGCTCTACCTGGCCCTGCAGGTCTACGGAGTTGAGGTGCCCGCTGAGGTCGAGGCTGAGAAGCCGTGGTGGCAGGTGTT
TGGTGACGACATTACC

ORF - retro_ggor_911 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.62 %
Parental protein coverage: 89.3 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalLSAGVKLGMRSIPIATACTIYHKFFCETNLDAYDPYLIAMSSIYLAGKVEEQHLRTRDIINVSNRYFNPS
..A.VKLGMRSIPIATACTIY.KFFCET.LDA.DPYLIAM.SIYLAGKVEEQHL.TRDIINVSN.YFNPS
RetrocopyMEASVKLGMRSIPIATACTIYRKFFCETSLDACDPYLIAMFSIYLAGKVEEQHLQTRDIINVSNKYFNPS
ParentalGEPLELDSHFWELRDSIVQCELLMLRVLRFQVSFQHPHKYLLHYLVSLKNWLNRHSWQRTPVAVTAWALL
GEPLELDS.F.ELRDSIVQC.LLMLRVLRFQVSFQHPHKYLLHYLVSLKNWLNRHSWQRTPVAVTAWALL
RetrocopyGEPLELDSRFRELRDSIVQCQLLMLRVLRFQVSFQHPHKYLLHYLVSLKNWLNRHSWQRTPVAVTAWALL
ParentalRDSYHGALCLRFQAQHIAVAVLYLALQVYGVEVPAEVEAEKAWWQVFNDDLT
RDSYH..LCLRFQ.QHIAVAVLYLALQVYGVEVPAEVEAEK.WWQVF.DD.T
RetrocopyRDSYHRGLCLRFQDQHIAVAVLYLALQVYGVEVPAEVEAEKPWWQVFGDDIT

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 .14 RPM 23 .98 RPM
SRP007412_cerebellum 0 .04 RPM 14 .97 RPM
SRP007412_heart 0 .06 RPM 12 .51 RPM
SRP007412_kidney 0 .04 RPM 13 .41 RPM
SRP007412_liver 0 .00 RPM 7 .04 RPM
SRP007412_testis 0 .00 RPM 4 .97 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_911 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_911 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 6 parental genes, and 8 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000114071 retrocopy
Dipodomys ordii ENSDORG000000128461 retrocopy
Gorilla gorilla ENSGGOG00000027073 2 retrocopies
retro_ggor_2302, retro_ggor_911 ,
Macaca mulatta ENSMMUG000000114801 retrocopy
Nomascus leucogenys ENSNLEG000000132982 retrocopies
Otolemur garnettii ENSOGAG000000332791 retrocopy



Copyright © RetrogeneDB 2014-2017