RetrogeneDB ID:

retro_ggor_2175

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:5:58821168..58821733(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RNASEH1
Ensembl ID:ENSGGOG00000034822
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2175
TCTGCAAGCCCGGAAGTTTCAGAAGGGCAGGAAAATCAACATGGACAAGAATCGGAGACGAAAGCCAGCAAGCGACTCCG
TGAGCCACTGGATGGAGATGGAGATGAAAGCGCAGAGCCATATGCAAGCACGTGAAGCCGAGCGTGAAGCCGGCGCCTCC
AGTTAGCAGAGACACGTTTTCCTACATGGGAGACTTCGTCGTCGTCTACGCTGATGGCTGCTGCTCCAGTAATGGGCGTA
GAAGGCCACGAGCAGGAATCCGCATTTACTGGGGGCCGGGCTATCCTTTAAATGTAGGCATTAGACTTCCTGGGTGGCAG
ACAAACCAAAGAGCGGAAATTCATGCAGCCTGCAAGGCCATTGAACAAGCAAAGACTCAGAACATCAATAAACTGGTTCT
GTATACGACAGTATGTTTACGATAAATGGTATAACTAACTGGGTTCAAGGTTGGAAGAAAAATGGGTGGAAGACAAGTGC
AGGGAAAGAGGTGATCAACAAAGAGGACTTCGTGGCACTGGAGAGGCTGACCCAGGGGATGGACATTCAGTGGGCGAGTA
TCTTA

ORF - retro_ggor_2175 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.58 %
Parental protein coverage: 66.78 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalSASPEVSEGRENQHGQESDAKAIKRLREPLDGDGHESAEPYA-KHMKPSVEPAPPVSRDMFSYMGDFVVV
SASPEVSEG.ENQHGQES..KA.KRLREPLDGDG.ESAEPYA.KH.KPSV.PAPPVSRD.FSYMGDFVVV
RetrocopySASPEVSEGQENQHGQESETKASKRLREPLDGDGDESAEPYA<KHVKPSVKPAPPVSRDTFSYMGDFVVV
ParentalYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKTQNINKLVLYT-DS
Y.DGCCSSNGRRRPRAGI..YWGPG.PLNVGIRLPG.QTNQRAEIHAACKAIEQAKTQNINKLVLYT.DS
RetrocopyYADGCCSSNGRRRPRAGIRIYWGPGYPLNVGIRLPGWQTNQRAEIHAACKAIEQAKTQNINKLVLYT<DS
ParentalMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQWKMVL
MFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQW...L
RetrocopyMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQWASIL

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 7 .62 RPM
SRP007412_cerebellum 0 .08 RPM 6 .62 RPM
SRP007412_heart 0 .00 RPM 3 .16 RPM
SRP007412_kidney 0 .04 RPM 4 .95 RPM
SRP007412_liver 0 .00 RPM 2 .82 RPM
SRP007412_testis 0 .52 RPM 6 .53 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_2175 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2175 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Pongo abelii retro_pabe_18

Parental genes homology:
Parental genes homology involve 11 parental genes, and 19 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000085476 retrocopies
Callithrix jacchus ENSCJAG000000354501 retrocopy
Echinops telfairi ENSETEG000000126741 retrocopy
Gorilla gorilla ENSGGOG00000034822 2 retrocopies
retro_ggor_2175 , retro_ggor_336,
Macropus eugenii ENSMEUG000000036101 retrocopy
Macaca mulatta ENSMMUG000000144752 retrocopies
Monodelphis domestica ENSMODG000000144911 retrocopy
Nomascus leucogenys ENSNLEG000000154002 retrocopies
Pongo abelii ENSPPYG000000258731 retrocopy
Pteropus vampyrus ENSPVAG000000020701 retrocopy
Sarcophilus harrisii ENSSHAG000000130511 retrocopy



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