RetrogeneDB ID:

retro_ptro_547

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:11:61554466..61554965(+)
Located in intron of:ENSPTRG00000003807
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:IMMP1L
Ensembl ID:ENSPTRG00000003472
Aliases:None
Description:IMP1 inner mitochondrial membrane peptidase-like (S. cerevisiae) [Source:HGNC Symbol;Acc:26317]


Retrocopy-Parental alignment summary:






>retro_ptro_547
ATGCTTCGTGGTGCTCTGGGGAAACCTTCTGACTTGTTGGCTATGCTATTCAGTATGGCTGTATAGCTCACTGTGCTTTT
GAATACGTTGGTGGTGTTGTCATGTGTTCTGGACCATCAATGGAGCCTACAATTCAAAATTCAGATACTGTCTTTGCAGA
AAATCTTAGTCGACATTTTTATAGTATCCAAAGAGGTGACATTGTGATTGCAAAAAGCCCAAGTGATCCAACATCAAATC
TTTGTAAAAGAGTAACTGGTTTGGAAGGAGACAAAATCCTCACCACTAGTCCATCAGATTTCTTTAAAAGCTACAGTTAT
GTCCCAGTGGGTCACGTTTGGTTAGAAGGTGATAAATCTACAGAATTCTACAGATTCCAGTTACTATGGACCTATTCCAT
ATGAACTAATAAGAGGACGAATCTTCTTTTAAGATTCGGCCTCTGAGTGATTTTGGATTTTTATGTGCCAGCCTTAATGG
CCACAGATTTTCTGATGAT

ORF - retro_ptro_547 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 88.76 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMLRGVLGK-TFRLVGYTIQYGCIAHCAFEYVGGVVMCSGPSMEPTIQNSDIVFAENLSRHFYGIQRGDIV
MLRG.LGK.TF.LVGY.IQYGCIAHCAFEYVGGVVMCSGPSMEPTIQNSD.VFAENLSRHFY.IQRGDIV
RetrocopyMLRGALGK<TF*LVGYAIQYGCIAHCAFEYVGGVVMCSGPSMEPTIQNSDTVFAENLSRHFYSIQRGDIV
ParentalIAKSPSDPKSNICKRVIGLEGDKILTTSPSDFFKSHSYVPMGHVWLEGD-NLQNSTDSRCYGPIPYGLIR
IAKSPSDP.SN.CKRV.GLEGDKILTTSPSDFFKS.SYVP.GHVWLEGD.NLQNSTDS..YGPIPY.LIR
RetrocopyIAKSPSDPTSNLCKRVTGLEGDKILTTSPSDFFKSYSYVPVGHVWLEGD>NLQNSTDSSYYGPIPYELIR
ParentalGRIF-FKIWPLSDFGFLRASPNGHRFSDD
GRIF.FKI.PLSDFGFL.AS.NGHRFSDD
RetrocopyGRIF>FKIRPLSDFGFLCASLNGHRFSDD

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 .04 RPM 2 .70 RPM
SRP007412_cerebellum 0 .07 RPM 2 .01 RPM
SRP007412_heart 0 .00 RPM 2 .13 RPM
SRP007412_kidney 0 .03 RPM 3 .56 RPM
SRP007412_liver 0 .03 RPM 1 .11 RPM
SRP007412_testis 1 .16 RPM 6 .22 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_547 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_547 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_547 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Gorilla gorilla retro_ggor_651

Parental genes homology:
Parental genes homology involve 27 parental genes, and 48 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000068761 retrocopy
Bos taurus ENSBTAG000000004751 retrocopy
Canis familiaris ENSCAFG000000075142 retrocopies
Choloepus hoffmanni ENSCHOG000000101064 retrocopies
Callithrix jacchus ENSCJAG000000060421 retrocopy
Dipodomys ordii ENSDORG000000002504 retrocopies
Equus caballus ENSECAG000000205123 retrocopies
Echinops telfairi ENSETEG000000030571 retrocopy
Homo sapiens ENSG000001489501 retrocopy
Gorilla gorilla ENSGGOG000000148971 retrocopy
Myotis lucifugus ENSMLUG000000065042 retrocopies
Macaca mulatta ENSMMUG000000168061 retrocopy
Mus musculus ENSMUSG000000426702 retrocopies
Nomascus leucogenys ENSNLEG000000178821 retrocopy
Oryctolagus cuniculus ENSOCUG000000296121 retrocopy
Otolemur garnettii ENSOGAG000000078533 retrocopies
Pongo abelii ENSPPYG000000033891 retrocopy
Pan troglodytes ENSPTRG00000003472 1 retrocopy
retro_ptro_547 ,
Pteropus vampyrus ENSPVAG000000155351 retrocopy
Rattus norvegicus ENSRNOG000000048291 retrocopy
Sarcophilus harrisii ENSSHAG000000154072 retrocopies
Sus scrofa ENSSSCG000000133221 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000031792 retrocopies
Tupaia belangeri ENSTBEG000000021266 retrocopies
Tarsius syrichta ENSTSYG000000092571 retrocopy
Tursiops truncatus ENSTTRG000000023952 retrocopies
Vicugna pacos ENSVPAG000000019401 retrocopy



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