RetrogeneDB ID:

retro_ggor_342

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:1:200535609..200535857(+)
Located in intron of:ENSGGOG00000013163
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GABARAPL2
Ensembl ID:ENSGGOG00000012299
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_342
GTGAAGTGGGTGTTCAGAGAGTCTCGCTCCTGGAACACAGGTGAGTGGAGTCCCCGAAGATCCGCACAAAATAGCCCAGC
CAGTTCCAGCAATTATGAAAAAGTCCAGGCTCTCAGACCACTGACCCTGATAAGTAGAAGTCCTTGGTGCCACCTGGTAT
TCCAGTGGCTCAGTCCATGCGCATCATCACGAGTAGGATCCAGCTTGCTGCTGAAAAGGCCTCTGTCCCGTTTGTGGATA
AGACAGTG

ORF - retro_ggor_342 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.23 %
Parental protein coverage: 71.79 %
Number of stop codons detected: 3
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMKWMFKEDHS-LEHRCVESAKIRAKYPDR-VPVIV-EKVS-GSQIVDIDKRKYLVPSDITVAQFMWIIRK
.KW.F.E..S.LEHR.VES.KIR.K.P...VP.I..EKV..GSQ..D.DK.K.LVP..I.VAQ.M.II..
RetrocopyVKWVFRESRS<LEHR*VESPKIRTK*PSQ<VPAIM<EKVQ<GSQTTDPDK*KSLVPPGIPVAQSMRIITS
ParentalRIQLPSEKAIFLFVDKTV
RIQL..EKA...FVDKTV
RetrocopyRIQLAAEKASVPFVDKTV

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 .05 RPM 105 .69 RPM
SRP007412_cerebellum 0 .00 RPM 89 .67 RPM
SRP007412_heart 0 .06 RPM 26 .95 RPM
SRP007412_kidney 0 .08 RPM 76 .99 RPM
SRP007412_liver 0 .00 RPM 37 .19 RPM
SRP007412_testis 0 .00 RPM 60 .30 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_342 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_342 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Pongo abelii retro_pabe_372
Macaca mulatta retro_mmul_540

Parental genes homology:
Parental genes homology involve 14 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000054532 retrocopies
Callithrix jacchus ENSCJAG000000142531 retrocopy
Dasypus novemcinctus ENSDNOG000000022402 retrocopies
Homo sapiens ENSG000000347131 retrocopy
Gorilla gorilla ENSGGOG00000012299 2 retrocopies
retro_ggor_2761, retro_ggor_342 ,
Gorilla gorilla ENSGGOG000000137701 retrocopy
Gorilla gorilla ENSGGOG000000223601 retrocopy
Loxodonta africana ENSLAFG000000170652 retrocopies
Myotis lucifugus ENSMLUG000000151121 retrocopy
Macaca mulatta ENSMMUG000000057592 retrocopies
Nomascus leucogenys ENSNLEG000000130482 retrocopies
Pongo abelii ENSPPYG000000075652 retrocopies
Pan troglodytes ENSPTRG000000083622 retrocopies
Rattus norvegicus ENSRNOG000000194251 retrocopy



Copyright © RetrogeneDB 2014-2017