RetrogeneDB ID:

retro_ggor_662

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:11:83714515..83714805(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000024225
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:PTP4A1
Ensembl ID:ENSGGOG00000022521
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_662
GTGGAGAAACTGGATTGGCCTTTTGATGATGGTTCATCATCATCCAACCAGATTGTTGATCACTGGTTAAGTCTTCTAGA
CGTTAAGTTTCGTGAAGAAGCTGGTTGTTGTATTGCCTTCACTGTGTTGCAGGTCTTGGGAGGACTCCAGTGCTTGTTGC
CCTAGCATTAATTGAAAGTGGAATGAAAAACGAAGATGCAGTACGGTTTATTAGAGATAAACGGCACGGCGCTTTTAACA
GCAAGCAACTTTTGTATTTGGAGAAATATCATTCTCAAATGCGGCCTCGC

ORF - retro_ggor_662 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.76 %
Parental protein coverage: 56.32 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalIHVLDWPFDDGAPPSNQIVDDWLSLVKIKFREEPGCCIA-VHCVAGLGSRAPVLVALALIEGGMKYEDAV
...LDWPFDDG...SNQIVD.WLSL...KFREE.GCCIA..HCVAGLG.R.PVLVALALIE.GMK.EDAV
RetrocopyVEKLDWPFDDGSSSSNQIVDHWLSLLDVKFREEAGCCIA<LHCVAGLG-RTPVLVALALIESGMKNEDAV
ParentalQFIRQKRRGAFNSKQLLYLEKYRPKMRLR
.FIR.KR.GAFNSKQLLYLEKY...MR.R
RetrocopyRFIRDKRHGAFNSKQLLYLEKYHSQMRPR

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 31 .51 RPM
SRP007412_cerebellum 0 .08 RPM 22 .89 RPM
SRP007412_heart 0 .00 RPM 9 .41 RPM
SRP007412_kidney 0 .00 RPM 61 .58 RPM
SRP007412_liver 0 .03 RPM 239 .30 RPM
SRP007412_testis 0 .21 RPM 138 .82 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_662 was not experimentally validated.


Parental genes homology:
Parental genes homology involve 27 parental genes, and 119 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000024383 retrocopies
Bos taurus ENSBTAG000000022753 retrocopies
Canis familiaris ENSCAFG000000024903 retrocopies
Callithrix jacchus ENSCJAG000000017433 retrocopies
Dipodomys ordii ENSDORG000000099606 retrocopies
Erinaceus europaeus ENSEEUG000000064773 retrocopies
Echinops telfairi ENSETEG000000081836 retrocopies
Felis catus ENSFCAG000000011993 retrocopies
Homo sapiens ENSG000001122455 retrocopies
Gorilla gorilla ENSGGOG000000106091 retrocopy
Gorilla gorilla ENSGGOG00000022521 7 retrocopies
Latimeria chalumnae ENSLACG000000071831 retrocopy
Loxodonta africana ENSLAFG000000065728 retrocopies
Myotis lucifugus ENSMLUG000000011621 retrocopy
Macaca mulatta ENSMMUG000000027771 retrocopy
Monodelphis domestica ENSMODG000000187015 retrocopies
Mustela putorius furoENSMPUG000000031181 retrocopy
Mus musculus ENSMUSG0000002606410 retrocopies
Nomascus leucogenys ENSNLEG000000004406 retrocopies
Oryctolagus cuniculus ENSOCUG000000063114 retrocopies
Pongo abelii ENSPPYG000000167435 retrocopies
Pan troglodytes ENSPTRG000000183144 retrocopies
Rattus norvegicus ENSRNOG000000117714 retrocopies
Rattus norvegicus ENSRNOG000000463704 retrocopies
Tupaia belangeri ENSTBEG0000000995614 retrocopies
Tarsius syrichta ENSTSYG000000046322 retrocopies
Tursiops truncatus ENSTTRG000000041296 retrocopies



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