RetrogeneDB ID:

retro_pabe_3332

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:8:56216477..56216711(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSPPYG00000025906
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_pabe_3332
ATGCTATCCAGGGTGGAGTGGGCAGCACTCCTGGAAGCAGCCAAGACCTTGGACCTGCTTGAGGTTTCCAGAGGGCTGAT
TCAGGGGTATGAGCATTATGAGAAATTTCCAAGGGAGATGCACCACATGCTGCTGGAGCTGGATGTGTTAGAGGACACCC
TGCAATGCGCAGAGTCTGGACATCTGTCCCACATCAGCCGTGGGGACCCCAACATGCTACTGAGTGATGAGGAA

ORF - retro_pabe_3332 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 58.97 %
Parental protein coverage: 62.4 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMIPKVEWSAFLEAADNLRLIQVPKGPVEGYEENEEFLRTMHHLLLEVEVIEGTLQCPESGRMFPISRGIP
M...VEW.A.LEAA..L.L..V..G...GYE..E.F.R.MHH.LLE..V.E.TLQC.ESG....ISRG.P
RetrocopyMLSRVEWAALLEAAKTLDLLEVSRGLIQGYEHYEKFPREMHHMLLELDVLEDTLQCAESGHLSHISRGDP
ParentalNMLLSEEE
NMLLS.EE
RetrocopyNMLLSDEE

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 50 .04 RPM
SRP007412_cerebellum 0 .00 RPM 25 .66 RPM
SRP007412_heart 0 .00 RPM 12 .22 RPM
SRP007412_kidney 0 .00 RPM 66 .29 RPM
SRP007412_liver 0 .00 RPM 39 .29 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_3332 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_3332 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_3332 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 11 parental genes, and 26 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000179653 retrocopies
Bos taurus ENSBTAG000000086461 retrocopy
Callithrix jacchus ENSCJAG000000180261 retrocopy
Equus caballus ENSECAG000000169601 retrocopy
Homo sapiens ENSG000001731134 retrocopies
Gorilla gorilla ENSGGOG000000013343 retrocopies
Macaca mulatta ENSMMUG000000196472 retrocopies
Nomascus leucogenys ENSNLEG000000049914 retrocopies
Pongo abelii ENSPPYG00000025906 5 retrocopies
Pteropus vampyrus ENSPVAG000000171341 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000198571 retrocopy



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