RetrogeneDB ID:

retro_ptro_1262

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:18:32063521..32064410(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:WDR45L
Ensembl ID:ENSPTRG00000009807
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_1262
ATGATCCTCCTACCCTGTAACTCCCACAGTAACTAGCTGCTCTACACCGGCTTCAGCCAGGACCACGGATGCCTTGCTTG
TTGGATGGAAAACGGATTCTGAGTCTATAACACCAATCCATTAAAATAAAAAGAGAAACAAAAATTTCTAGGAGGAAGAG
TTGGTCATTATGAAATGTTATTTTGCTGCAACTATTTAGCTTTAGTTGTTGGTGGAAAAAAGCCAAAATACCTTCCCAAC
AAAGTGATGATCTGAGATGATGGAAAAAGAAGACTGTTAATGAAATAGAATTTGCTACAGAAGTCAAGGCAGTCAAATTG
CAGCGAGATAGAATTGTGGTTGTTTTGGACTCCATGATTAAGGTGTTTGCACTCACACAGAACCCCCATCAGTTGTACAT
CTTTGAAACCTCCTAAAACCCTAAAGGCCTCTGTCCTCTGTCCCAATAGCAACAACTCTCTTCTGGCCTTGCCGGGCACG
CACACGGGCCATGTTCAGCTCGTGGACTGGGCCAGCACAGAGAAGCCACCTGTGGACATTCCCGCCCTGAGGGCATCCTG
AGCTGCATCATACTCAACCTGCAGGGAACAAGAATTGCAACCACACTCGCAAAAGGGACCCTTTTAAGAATATTTGATAC
CTCATCAGGACATTTAATCCAGGAACTATGAAGAGGATCTCAAGCAGCTAATGTTTTCTGCATTAACTTCAGTCAAGATG
AGTCCTTCATCTGCATATCCAGTGACCACAGCACAGTGCACATTTTTGCAGCTGAAGACCCAGGAAGGAATAAACAGTCC
AATTTGGTGTCAGCTAGTTTCCTTCCAAAATCCTTTAGTTGCAAAGGGGTTTCTCCAAGTTTCAGGTTCCCTTGGGCTCT
CCATGCATT

ORF - retro_ptro_1262 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.81 %
Parental protein coverage: 86.63 %
Number of stop codons detected: 6
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMNLLPCNPHGNGLLYAGFNQDHGCFACGMENGFRVYNTDPLKEKEKQEFLEGGVGHVEMLFRCNYLALVG
M.LLPCN.H.N.LLY.GF.QDHGC.AC.MENGF.VYNT.PLK.KEKQ.FL.G.VGH.EMLF.CNYLALV.
RetrocopyMILLPCNSHSN*LLYTGFSQDHGCLACWMENGF*VYNTNPLK*KEKQKFLGGRVGHYEMLFCCNYLALVV
ParentalGGKKPKYPPNKVMIWDD-LKKKTVIEIEFSTEVKAVKLRRDRIVVVLDSMIKVFTFTHNPHQLHVFETCY
GGKKPKY.PNKVMI.DD..KKKTV.EIEF.TEVKAVKL.RDRIVVVLDSMIKVF..T.NPHQL..FET..
RetrocopyGGKKPKYLPNKVMI*DD<WKKKTVNEIEFATEVKAVKLQRDRIVVVLDSMIKVFALTQNPHQLYIFETS*
ParentalNPKGLCVLCP-NSNNSLLAFPGTHTGHVQLVDLASTEKPPVDIPA-HEGVLSCIALNLQGTRIATASEKG
NPKGLC.L.....N..L.A.PGTHTGHVQLVD.ASTEKPPVDIPA..EG.LSCI.LNLQGTRIAT...KG
RetrocopyNPKGLCPLSQ>SNNSLL-ALPGTHTGHVQLVDWASTEKPPVDIPA<PEGILSCIILNLQGTRIATTLAKG
ParentalTLIRIFDTSSGHLIQELRRGSQAANIYCINFNQDASLICVSSDHGTVHIFAAEDPKRNKQSSLASASFLP
TL.RIFDTSSGHLIQEL.RGSQAAN..CINF.QD.S.IC.SSDH.TVHIFAAEDP.RNKQS.L.SASFLP
RetrocopyTLLRIFDTSSGHLIQEL*RGSQAANVFCINFSQDESFICISSDHSTVHIFAAEDPGRNKQSNLVSASFLP
ParentalKYFSSKW-SFSKFQVPSGSPCI
K.FS.K...FSKFQVP.GSPCI
RetrocopyKSFSCKG<GFSKFQVPLGSPCI

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 75 .52 RPM
SRP007412_cerebellum 0 .50 RPM 130 .92 RPM
SRP007412_heart 0 .00 RPM 43 .25 RPM
SRP007412_kidney 0 .24 RPM 102 .91 RPM
SRP007412_liver 0 .33 RPM 85 .14 RPM
SRP007412_testis 0 .00 RPM 108 .02 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1262 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1262 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1262 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 10 parental genes, and 15 retrocopies.

Species Parental gene accession Retrocopies number
Cavia porcellus ENSCPOG000000056571 retrocopy
Homo sapiens ENSG000001415802 retrocopies
Gorilla gorilla ENSGGOG000000061322 retrocopies
Macropus eugenii ENSMEUG000000133441 retrocopy
Macaca mulatta ENSMMUG000000218031 retrocopy
Mus musculus ENSMUSG000000251731 retrocopy
Nomascus leucogenys ENSNLEG000000105161 retrocopy
Pongo abelii ENSPPYG000000087852 retrocopies
Pan troglodytes ENSPTRG00000009807 3 retrocopies
retro_ptro_1171, retro_ptro_1262 , retro_ptro_2912,
Pteropus vampyrus ENSPVAG000000062121 retrocopy



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