RetrogeneDB ID:

retro_ptro_2315

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:5:180672083..180672327(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PTS
Ensembl ID:ENSPTRG00000004288
Aliases:None
Description:6-pyruvoyl tetrahydrobiopterin synthase [Source:UniProtKB/TrEMBL;Acc:H2R4Y8]


Retrocopy-Parental alignment summary:






>retro_ptro_2315
AAGATTGATCCTGTCACGGGAATGGTTTCAAATCTGACCAACCTCATGGCATACATTGGGGAAGCAATTGTGAAACCCCT
TGATTCTCTGGATCTGGACATGCTGTACTGTGACAATGGTTTGTGTGTGACAGAAAATGTAGCTGTGTCTACCGGGAAAG
ACTGGGGAAATTTCTTCCTGTGGAGTTCTTTATAAAGCAAAAGTGCATGAAACTGTCAGTAATATTGTAGTCTATAAAGG
GAAA

ORF - retro_ptro_2315 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 55.81 %
Parental protein coverage: 57.93 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalEIDPATGMVMNLADLKKYMEEAIMQPLDHKNLDMDVPYFADVVSTTENVAVYIW-DNLQKVLPV-GVLYK
.IDP.TGMV.NL..L..Y..EAI..PLD...LD.D..Y.......TENVAV......L.K.LPV.GVLYK
RetrocopyKIDPVTGMVSNLTNLMAYIGEAIVKPLD--SLDLDMLYCDNGLCVTENVAVSTG<ERLGKFLPV<GVLYK
ParentalVKVYETDNNIVVYKGE
.KV.ET..NIVVYKG.
RetrocopyAKVHETVSNIVVYKGK

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 10 .30 RPM
SRP007412_cerebellum 0 .00 RPM 3 .30 RPM
SRP007412_heart 0 .00 RPM 3 .03 RPM
SRP007412_kidney 0 .00 RPM 6 .33 RPM
SRP007412_liver 0 .00 RPM 7 .89 RPM
SRP007412_testis 0 .00 RPM 2 .00 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_2315 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_2315 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_2315 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 10 parental genes, and 17 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000000132 retrocopies
Callithrix jacchus ENSCJAG000000124372 retrocopies
Dasypus novemcinctus ENSDNOG000000148231 retrocopy
Echinops telfairi ENSETEG000000081452 retrocopies
Homo sapiens ENSG000001507871 retrocopy
Macaca mulatta ENSMMUG000000152551 retrocopy
Nomascus leucogenys ENSNLEG000000072991 retrocopy
Otolemur garnettii ENSOGAG000000171913 retrocopies
Pongo abelii ENSPPYG000000038801 retrocopy
Pan troglodytes ENSPTRG00000004288 3 retrocopies
retro_ptro_2315 , retro_ptro_2979, retro_ptro_337,



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