RetrogeneDB ID:

retro_ggor_2031

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:4:62438695..62439036(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL22L1
Ensembl ID:ENSGGOG00000001734
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2031
GCATCTCAGAAAGACAAGAAGCCCAAGAGGTCAACCTGAAAGTTTAATTTGGACCTTACTAATCCAGCAGAAGATGAAAT
TTTTGATTCTGGAAATTTTGAACAATTTCTACGGGAGAAGGCTGGATATCTCGGGAATGTTGTTCACATTGAATGCTTCA
AGAATAAAATCACAGTTCTTTCTGAGAAACAGTTCTCTAAAAGGTATTTGAAATATCTTACCAAGAAATACCTTAAGAAG
AGCAGTCTTCATGATTGGCTTGGAGTGGTTGCATCTGACAGGAGACTTACGAACTTTGTTACTTCCAGATTAGTCAAGAA
GATGAAGCAGAGTCGGAGGAC

ORF - retro_ggor_2031 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.87 %
Parental protein coverage: 99.18 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalAPQKDRKPKRSTWRFNLDLTHPVEDGIFDSGNFEQFLREKVKVNGKTGNLGNVVHIERFKNKITVVSEKQ
A.QKD.KPKRST..FNLDLT.P.ED.IFDSGNFEQFLREK....G..GN...VVHIE.FKNKITV.SEKQ
RetrocopyASQKDKKPKRST*KFNLDLTNPAEDEIFDSGNFEQFLREKA---GYLGN---VVHIECFKNKITVLSEKQ
ParentalFSKRYLKYLTKKYLKKNNLRDWLRVVASDK-ETYELRYFQISQDEDESESED
FSKRYLKYLTKKYLKK..L.DWL.VVASD..ETYEL.YFQISQ.EDE.ESED
RetrocopyFSKRYLKYLTKKYLKKSSLHDWLGVVASDR<ETYELCYFQISQ-EDEAESED

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 1 .63 RPM
SRP007412_cerebellum 0 .00 RPM 3 .66 RPM
SRP007412_heart 0 .00 RPM 0 .53 RPM
SRP007412_kidney 0 .00 RPM 3 .48 RPM
SRP007412_liver 0 .00 RPM 6 .07 RPM
SRP007412_testis 0 .00 RPM 4 .25 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_2031 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2031 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2929
Pongo abelii retro_pabe_2524
Macaca mulatta retro_mmul_1954

Parental genes homology:
Parental genes homology involve 28 parental genes, and 91 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000047301 retrocopy
Canis familiaris ENSCAFG000000149552 retrocopies
Callithrix jacchus ENSCJAG000000024271 retrocopy
Cavia porcellus ENSCPOG000000092151 retrocopy
Equus caballus ENSECAG000000188941 retrocopy
Erinaceus europaeus ENSEEUG000000119415 retrocopies
Echinops telfairi ENSETEG000000106589 retrocopies
Homo sapiens ENSG000001635841 retrocopy
Gorilla gorilla ENSGGOG00000001734 1 retrocopy
retro_ggor_2031 ,
Gorilla gorilla ENSGGOG0000002773910 retrocopies
Gadus morhua ENSGMOG000000040771 retrocopy
Loxodonta africana ENSLAFG000000132202 retrocopies
Macropus eugenii ENSMEUG000000094841 retrocopy
Myotis lucifugus ENSMLUG000000230522 retrocopies
Myotis lucifugus ENSMLUG000000276838 retrocopies
Macaca mulatta ENSMMUG000000228812 retrocopies
Mus musculus ENSMUSG000000392214 retrocopies
Nomascus leucogenys ENSNLEG000000052872 retrocopies
Oryctolagus cuniculus ENSOCUG000000149622 retrocopies
Otolemur garnettii ENSOGAG000000126422 retrocopies
Procavia capensis ENSPCAG000000087041 retrocopy
Pongo abelii ENSPPYG000000259001 retrocopy
Pteropus vampyrus ENSPVAG000000115241 retrocopy
Rattus norvegicus ENSRNOG000000118172 retrocopies
Sus scrofa ENSSSCG000000274415 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000229723 retrocopies
Tupaia belangeri ENSTBEG0000000035717 retrocopies
Tursiops truncatus ENSTTRG000000070353 retrocopies



Copyright © RetrogeneDB 2014-2017