RetrogeneDB ID:

retro_ggor_2345

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:6:62914978..62915243(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CRB3
Ensembl ID:ENSGGOG00000007070
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2345
ATGGCAAACCCTGGCCTAGGGCTGCTCCTGGCCTTGGCCCTGCCTCTGCTGCAGGCCTGCTTAGGCCCAGCCTTGAGACA
AACCTCCACAGCAGGGGCCCCTTCTGTAAATGAGAGCAGCACTATCATGCCCACCAGCTCCAGCTCCAAAGGGACCCTGT
CTCAGGGGGCATCACTGCTATCATGTGGACTAATCCATCCTGGCCACCCCACTCCTGGCTGTGGGACTGGAACTACTGGT
GCAGAAGCTTCAGGAGAAGCATAGA

ORF - retro_ggor_2345 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 56.84 %
Parental protein coverage: 72. %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMANPGLGLLLALGLPFLLARWGRAWGQIQTASA---NEDSTVLPSSTSSSSSSDGNLRPEAT-TAII-VV
MANPGLGLLLAL.LP.L.A..G.A..Q..TA.A...NE.ST..P.....SSSS.G.L...A..TAI..V.
RetrocopyMANPGLGLLLALALPLLQACLGPALRQTSTAGAPSVNESSTIMPT----SSSSKGTLSQGAS<TAIM<VD
ParentalFSLLAALLLAVGLALLVRKLREKRQ
.S.LA..LLAVGL.LLV.KL.EK..
Retrocopy*SILATPLLAVGLELLVQKLQEKHR

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 .14 RPM
SRP007412_cerebellum 0 .00 RPM 0 .35 RPM
SRP007412_heart 0 .00 RPM 0 .03 RPM
SRP007412_kidney 0 .00 RPM 5 .15 RPM
SRP007412_liver 0 .03 RPM 2 .66 RPM
SRP007412_testis 0 .00 RPM 0 .00 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_2345 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2345 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3478
Pan troglodytes retro_ptro_2984
Pongo abelii retro_pabe_2873

Parental genes homology:
Parental genes homology involve 9 parental genes, and 12 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000165671 retrocopy
Homo sapiens ENSG000001305452 retrocopies
Gorilla gorilla ENSGGOG00000007070 2 retrocopies
retro_ggor_1910, retro_ggor_2345 ,
Macaca mulatta ENSMMUG000000055991 retrocopy
Nomascus leucogenys ENSNLEG000000159361 retrocopy
Pongo abelii ENSPPYG000000094572 retrocopies
Pan troglodytes ENSPTRG000000103671 retrocopy
Rattus norvegicus ENSRNOG000000473221 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000023961 retrocopy



Copyright © RetrogeneDB 2014-2017