RetrogeneDB ID:

retro_ggor_2880

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:9:106358787..106359161(-)
Located in intron of:ENSGGOG00000003890
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS25
Ensembl ID:ENSGGOG00000025540
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2880
ATGCCACCCAAGGACTACAAGAAGAAGACAGACACTGGAAAGTCAGCCAAGAAAGACAAAGACCCAGTGAACAAACCCGG
GGGCAAGGCCAAAAAGAAGAAATGGTCCAAAGGCAAAGTTAGGGACAAGCTCAATACCTTGTCTTGTTTGACAAAGCTAC
ATATGACAAACTCTGTAAGGAAGTTCCCAACTATAAACTTATAACTCCAGTTGTGGTCTCTAAGAGACTGAAGATTTGAG
GTTCCCTGGCCAGGGCAGCCCTTCTGGAGCTCCTTAGTAAAGGACTTATCAAACTGCTTTCAAAGCACAGAGCTCAAGTA
ATTTACACCAGAAATACCAAGGGCAGAGATGCTCCAGCTGCTGGTGAAGATGCA

ORF - retro_ggor_2880 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.48 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMPPKDDKKKKDAGKSAKKDKDPVNKSGGKAKKKKWSKGKVRDKLNN-LVLFDKATYDKLCKEVPNYKLIT
MPPKD.KKK.D.GKSAKKDKDPVNK.GGKAKKKKWSKGKVRDKLN..LVLFDKATYDKLCKEVPNYKLIT
RetrocopyMPPKDYKKKTDTGKSAKKDKDPVNKPGGKAKKKKWSKGKVRDKLNT<LVLFDKATYDKLCKEVPNYKLIT
ParentalPAVVSERLKIRGSLARAALQELLSKGLIKLVSKHRAQVIYTRNTKGGDAPAAGEDA
P.VVS.RLKI.GSLARAAL.ELLSKGLIKL.SKHRAQVIYTRNTKG.DAPAAGEDA
RetrocopyPVVVSKRLKI*GSLARAALLELLSKGLIKLLSKHRAQVIYTRNTKGRDAPAAGEDA

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 88 .09 RPM
SRP007412_cerebellum 0 .00 RPM 94 .56 RPM
SRP007412_heart 0 .00 RPM 69 .29 RPM
SRP007412_kidney 0 .04 RPM 235 .11 RPM
SRP007412_liver 0 .05 RPM 215 .01 RPM
SRP007412_testis 0 .00 RPM 199 .02 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_2880 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2880 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_4310
Pan troglodytes retro_ptro_2918
Pongo abelii retro_pabe_3507

Parental genes homology:
Parental genes homology involve 12 parental genes, and 90 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000277722 retrocopies
Callithrix jacchus ENSCJAG000000136911 retrocopy
Dasypus novemcinctus ENSDNOG000000078807 retrocopies
Homo sapiens ENSG000001181813 retrocopies
Gorilla gorilla ENSGGOG00000025540 7 retrocopies
Mus musculus ENSMUSG0000000992715 retrocopies
Oryctolagus cuniculus ENSOCUG0000001725611 retrocopies
Otolemur garnettii ENSOGAG000000072653 retrocopies
Pongo abelii ENSPPYG000000259156 retrocopies
Sorex araneus ENSSARG000000022844 retrocopies
Tupaia belangeri ENSTBEG0000001024416 retrocopies
Tarsius syrichta ENSTSYG0000000542215 retrocopies



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