RetrogeneDB ID:

retro_ptro_505

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:10:83851786..83852261(-)
Located in intron of:ENSPTRG00000002697
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CACYBP
Ensembl ID:ENSPTRG00000001705
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_505
GCTTTGGAAGAGCTACAGAAACATCTAGAAGAAGCAAAGGTGTTGCTGGAGAAGGCTACTAGGAAAGGAGTACGTGATGC
CCTTACAGGTGAAAAAATCCAAAATTGAGACAGAAATCCAGAACAAGATGCAACAGAAATCATAGAAGAAAGCAGAACTT
CTTGATAATGAAAAGCCAGATGCTGTGGTTGCTCCCGTTACAATGGGATATACAGTGAAAACCAGTAATTATGGATGGGT
TCAGTCAGATAAGTCTGTGAAAATCTACATTACCTTAACTGGAGTTCATCAAGTTCCCTCTGAGAATGTGCAGGTGCATT
TTACAGAGAGGTCATTTGATCTTTTGGTAAAGAATCTAAGTGGGAGGAGTTACTCCATGACTGTGAACAATCTCCTGAAA
CTCACTTCTGTGGAAGGCAGTTCAAAAAAGGTCAAGACTGATACAGTTCTTATTTTATGCAGAAAGAAAGTGGAA

ORF - retro_ptro_505 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.42 %
Parental protein coverage: 69.3 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalASEELQKDLEEVKVLLEKATRKRVRDALTAEK-SKIETEIKNKMQQKSQKKAELLDNEKPAAVVAPITTG
A.EELQK.LEE.KVLLEKATRK.VRDALT.EK.SKIETEI.NKMQQKS.KKAELLDNEKP.AVVAP.T.G
RetrocopyALEELQKHLEEAKVLLEKATRKGVRDALTGEK>SKIETEIQNKMQQKS*KKAELLDNEKPDAVVAPVTMG
ParentalYTVKISNYGWDQSDKFVKIYITLTGVHQVPTENVQVHFTERSFDLLVKNLNGKSYSMIVNNLLKPISVEG
YTVK.SNYGW.QSDK.VKIYITLTGVHQVP.ENVQVHFTERSFDLLVKNL.G.SYSM.VNNLLK..SVEG
RetrocopyYTVKTSNYGWVQSDKSVKIYITLTGVHQVPSENVQVHFTERSFDLLVKNLSGRSYSMTVNNLLKLTSVEG
ParentalSSKKVKTDTVLILCRKKVE
SSKKVKTDTVLILCRKKVE
RetrocopySSKKVKTDTVLILCRKKVE

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 .07 RPM 80 .13 RPM
SRP007412_cerebellum 0 .00 RPM 72 .88 RPM
SRP007412_heart 0 .03 RPM 30 .14 RPM
SRP007412_kidney 0 .00 RPM 46 .21 RPM
SRP007412_liver 0 .00 RPM 23 .37 RPM
SRP007412_testis 0 .00 RPM 59 .65 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_505 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_505 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_505 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_706
Gorilla gorilla retro_ggor_601
Pongo abelii retro_pabe_520
Callithrix jacchus retro_cjac_975

Parental genes homology:
Parental genes homology involve 26 parental genes, and 68 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000001704 retrocopies
Bos taurus ENSBTAG000000011071 retrocopy
Canis familiaris ENSCAFG000000290161 retrocopy
Callithrix jacchus ENSCJAG000000089894 retrocopies
Cavia porcellus ENSCPOG000000126827 retrocopies
Dasypus novemcinctus ENSDNOG000000156291 retrocopy
Dipodomys ordii ENSDORG000000018701 retrocopy
Erinaceus europaeus ENSEEUG000000149732 retrocopies
Echinops telfairi ENSETEG000000093313 retrocopies
Felis catus ENSFCAG000000085913 retrocopies
Homo sapiens ENSG000001161612 retrocopies
Gorilla gorilla ENSGGOG000000059622 retrocopies
Macropus eugenii ENSMEUG000000107255 retrocopies
Macaca mulatta ENSMMUG000000015711 retrocopy
Mustela putorius furoENSMPUG000000048133 retrocopies
Mus musculus ENSMUSG000000142264 retrocopies
Nomascus leucogenys ENSNLEG000000153573 retrocopies
Oryctolagus cuniculus ENSOCUG000000043583 retrocopies
Otolemur garnettii ENSOGAG000000053752 retrocopies
Ochotona princeps ENSOPRG000000003161 retrocopy
Procavia capensis ENSPCAG000000037423 retrocopies
Pongo abelii ENSPPYG000000004863 retrocopies
Pan troglodytes ENSPTRG00000001705 2 retrocopies
retro_ptro_1723, retro_ptro_505 ,
Rattus norvegicus ENSRNOG000000025722 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000108594 retrocopies
Tursiops truncatus ENSTTRG000000103991 retrocopy



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