RetrogeneDB ID:

retro_ggor_2939

Retrocopy
location
Organism:Gorilla (Gorilla gorilla)
Coordinates:X:98186514..98187034(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSGGOG00000022588
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:NSA2
Ensembl ID:ENSGGOG00000014365
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ggor_2939
ATGCCACAGAACGAATATATTGAATTACACTGTAAACGCTATGGATATCGTTTGGATTACCATGAGAAAAAGAGAAAGAA
GGAAAGTCGAGAGGCTATGAACGTTCAAAGAAGGCAAAGAAAATGATGGTCTGAAGGCTAAGCTTTACCATAAACCGTGC
CATGCTGAGAAAATACAAATGAAAAAGACTATCAAGATGCATGAAAAGAGAAACACCAAACAAAAGAATAATGAAAAGAC
TCCACGGGGATCAGTACCTGCCTATCTGCTGGACAGAGAGGCACAATCTCGAGCTACAGTACTTTCCAATATGATTAAAC
AGAAACGAAAAGAGAAGGTGGGAAAATGGGAAGTCCCTCTGCCTGAAGTATGTGCCCAAGGAGAAACAAAAGTATTAAAA
GTTATTCGAACAGGAAAGAGAAAGAAGAAGGCACAGAAGAGGATGGTTACTAAAGTCTGCTTTGTTGGAGATGGCTTTAT
AAGAAAACCACCTAAATATGAAAGACTCATCAGGCCAATG

ORF - retro_ggor_2939 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 89.2 %
Parental protein coverage: 89.23 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMPQNEYIELHRKRYGYRLDYHEKKRKKESREA-HERSKKAKKMI-GLKAKLYHKQRHAEKIQMKKTIKMH
MPQNEYIELH.KRYGYRLDYHEKKRKKESREA..ERSKKAKKM..GLKAKLYHK..HAEKIQMKKTIKMH
RetrocopyMPQNEYIELHCKRYGYRLDYHEKKRKKESREA<YERSKKAKKMM<GLKAKLYHKPCHAEKIQMKKTIKMH
ParentalEKRNTKQKNDEKTPQGAVPAYLLDREGQSRAKVLSNMIKQKRKEKAGKWEVPLPKVRAQGETEVLKVIRT
EKRNTKQKN.EKTP.G.VPAYLLDRE.QSRA.VLSNMIKQKRKEK.GKWEVPLP.V.AQGET.VLKVIRT
RetrocopyEKRNTKQKNNEKTPRGSVPAYLLDREAQSRATVLSNMIKQKRKEKVGKWEVPLPEVCAQGETKVLKVIRT
ParentalGKRKKKAWKRMVTKVCFVGDGFTRKPPKYERFIRPM
GKRKKKA.KRMVTKVCFVGDGF.RKPPKYER.IRPM
RetrocopyGKRKKKAQKRMVTKVCFVGDGFIRKPPKYERLIRPM

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 1 .39 RPM 29 .30 RPM
SRP007412_cerebellum 1 .18 RPM 19 .90 RPM
SRP007412_heart 0 .34 RPM 12 .04 RPM
SRP007412_kidney 1 .88 RPM 64 .36 RPM
SRP007412_liver 1 .66 RPM 31 .86 RPM
SRP007412_testis 3 .63 RPM 103 .60 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_2939 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ggor_2939 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 24 parental genes, and 176 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000083114 retrocopies
Callithrix jacchus ENSCJAG000000168741 retrocopy
Cavia porcellus ENSCPOG000000066481 retrocopy
Dasypus novemcinctus ENSDNOG000000106151 retrocopy
Echinops telfairi ENSETEG0000000409513 retrocopies
Felis catus ENSFCAG000000119781 retrocopy
Homo sapiens ENSG000001643464 retrocopies
Gorilla gorilla ENSGGOG00000014365 6 retrocopies
Loxodonta africana ENSLAFG000000099104 retrocopies
Macropus eugenii ENSMEUG000000157983 retrocopies
Microcebus murinus ENSMICG000000007523 retrocopies
Macaca mulatta ENSMMUG000000111966 retrocopies
Monodelphis domestica ENSMODG000000019004 retrocopies
Mustela putorius furoENSMPUG000000057955 retrocopies
Nomascus leucogenys ENSNLEG0000000504610 retrocopies
Oryctolagus cuniculus ENSOCUG000000065366 retrocopies
Ochotona princeps ENSOPRG000000018677 retrocopies
Pongo abelii ENSPPYG000000259268 retrocopies
Pan troglodytes ENSPTRG000000169906 retrocopies
Rattus norvegicus ENSRNOG0000001653015 retrocopies
Sorex araneus ENSSARG000000094244 retrocopies
Sarcophilus harrisii ENSSHAG000000176545 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000079593 retrocopies
Tupaia belangeri ENSTBEG0000001297856 retrocopies



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