RetrogeneDB ID:

retro_ptro_2794

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:8:117571161..117571514(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GABARAPL2
Ensembl ID:ENSPTRG00000008362
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_2794
ATCAAGTAGATATTCAAGGAAGAACACTCACTGGAACATAGATGTACAGAATCCGCAAAGATCTGAGCAAAATATCCTGA
CCAGGTTCTGGTAATTGTGGAAAAGGTCTCAGGCTCTCAGGTTGTTAACACTGACAACCAGAGGAAGTTGGGTCCAGTTG
ATGCCACTGTAGCTCAGTTAATATGAATCACCAGGAAAAGGATTCAGCTTCCTTCTGAAAAGGAGATCTTTCTGTTTGTG
AACAAGACAGTCCCATAGTCCAGCCTAACTATGGGACAGCTTTTCAGAAGGAAAAAGATGAAGATTGATTCTTGTATGTT
CTGGCCTACAGCACTTGGAACATTTTGGGCTTC

ORF - retro_ptro_2794 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 71.43 %
Parental protein coverage: 100. %
Number of stop codons detected: 5
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMKWMFKEDHSLEHRCVESAKIRAKYPDRVPVIVEKVSGSQIVDIDKRKYLVPSDITVAQFMWIIRKRIQL
.K..FKE.HSLEHRC.ESAKI.AKYPD.V.VIVEKVSGSQ.V..D....L.P.D.TVAQ...I.RKRIQL
RetrocopyIK*IFKEEHSLEHRCTESAKI*AKYPDQVLVIVEKVSGSQVVNTDNQRKLGPVDATVAQLI*ITRKRIQL
ParentalPSEKAIFLFVDKTVPQSSLTMGQL-YEKEKDEDGFLYV-AYSGENTFGF
PSEK.IFLFV.KTVP.SSLTMGQL...KEKDED.FLYV.AYS..N..GF
RetrocopyPSEKEIFLFVNKTVP*SSLTMGQL<FQKEKDED*FLYVLAYSTWNILGF

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 .02 RPM 101 .90 RPM
SRP007412_cerebellum 0 .00 RPM 92 .31 RPM
SRP007412_heart 0 .00 RPM 56 .57 RPM
SRP007412_kidney 0 .00 RPM 60 .78 RPM
SRP007412_liver 0 .00 RPM 19 .15 RPM
SRP007412_testis 0 .00 RPM 40 .89 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_2794 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_2794 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_2794 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_4115
Pongo abelii retro_pabe_3368
Macaca mulatta retro_mmul_2369

Parental genes homology:
Parental genes homology involve 14 parental genes, and 24 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 ENSGGOG000000122992 retrocopies
Loxodonta africana ENSLAFG000000170652 retrocopies
Myotis lucifugus ENSMLUG000000151121 retrocopy
Macaca mulatta ENSMMUG000000057592 retrocopies
Nomascus leucogenys ENSNLEG000000130482 retrocopies
Pongo abelii ENSPPYG000000075652 retrocopies
Pan troglodytes ENSPTRG00000008362 2 retrocopies
retro_ptro_250, retro_ptro_2794 ,
Pan troglodytes ENSPTRG000000084453 retrocopies
Pan troglodytes ENSPTRG000000341151 retrocopy
Rattus norvegicus ENSRNOG000000194251 retrocopy



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