RetrogeneDB ID:

retro_ptro_2825

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:9:37977143..37978308(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KCTD9
Ensembl ID:ENSPTRG00000020092
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_2825
ATGAGGCGGGTGACCCTGTTCCTGAACGGCAGCCCCAAGAATGGAAAGGTGGTTGCTGATATGGAACTTTATCTGATTTG
CTGTCTGGGGCCAGCAGTAAACTCGGCATAAAAGCCACCAGTGTGTATAATGGGAAAGGTGGACTGAATGATGATATTGT
TTTGATCAGGGATGATGATGTTTTATTTGTGTGTGAGGGAGAGCCATTTATTGATCCTCAGACAGATTCTAAGCCTCCTG
AAGGATTGCTAGGATTCCACACAGACTGGCTAACATTACATGTTGGAGGGCAGTACTTTACAACTACCTGGAGCACTTTA
GTGAATAAAGAACCTGACATTATGCTGGCCCACATGTTTAAGGACAAAGGTGTCTGGGGAGATAAGCAAGATCATAGAGG
AGCTTTCTTAATTGACCAAAGTCCTGGGTACTTTGAACCCATTTTGAACTACTTGCGTCATGGACAGCTCATTGTAAATG
ATGGCATTGATTTATTGGGTGTGTTAGAAGAAGCAAGATTTTTTGGTATTGACTCATTGATTGAACACCTAAAAGTGGCA
ATAAAGAATTCTCAACCACCAGAGGATCATTTACCAATATCCCGAAAGGAATTTGTCCGATGTTTGCTAGCAACTCCAAC
CAAGTCAGAAATGCGATGCCAGGGTTTGAACTTCAGTGGTGCTGAACTTTCTCATTTGGATCTTCGATACATTAACTTCA
AAATCACCAATTTAAACTGCTGCAATCTTGCACATGCAAATCTTTGCTGTGCAAATCTTGAATGAGCTGATCTCTCTGGA
TCAGTGCTTGACTGTGCAAATCTCCAGGGAGTCAAATGCTCTGTTCTAATGCAGAAGGAGCATCTCTGAAACGGTGTAAT
TTTGAGGATCCTTCTGGTCTTAAAGCCAATTTAGAAGGTGCTAATCTGAAAGGTGTGGATATGGAAGGAAGTCAGATGAC
AGGAATTAACCTGAGAGTGGCTACCTTAAAAAATGCAAAGTTGAAGAACTGTAGCCTCAGAGGAGCAACTCTGACAGGAA
CTGATTTAGAGAACTGTGATCTGTCTGGGTGTGATCTTCAAGAAGCCAACCTGAGAGGGTCCAACGTGAGGGGAGCTAGA
TTTGAAGAGATGCTGACACCACTACACGTGTCGCAAAGTGTCAGA

ORF - retro_ptro_2825 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 91.82 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMRRVTLFLNGSPKNGKVVAV-YGTLSDLLSVASSKLGIKATSVYNGKGGLIDDIALIRDDDVLFVCEGEP
MRRVTLFLNGSPKNGKVVA..YGTLSDLLS.ASSKLGIKATSVYNGKGGL.DDI.LIRDDDVLFVCEGEP
RetrocopyMRRVTLFLNGSPKNGKVVAD<YGTLSDLLSGASSKLGIKATSVYNGKGGLNDDIVLIRDDDVLFVCEGEP
ParentalFIDPQTDSKPPEGLSGFHTDWLTLNVGGRYFTTTRSTLVNKEPDSMLAHMFKDKGVWGNKQDHRGAFLID
FIDPQTDSKPPEGL.GFHTDWLTL.VGG.YFTTT.STLVNKEPD.MLAHMFKDKGVWG.KQDHRGAFLID
RetrocopyFIDPQTDSKPPEGLLGFHTDWLTLHVGGQYFTTTWSTLVNKEPDIMLAHMFKDKGVWGDKQDHRGAFLID
ParentalRSPEYFEPILNYLRHGQLIVNDGINLLGVLEEARFFGIDSLIEHLEVAIKNSQPPEDHSPISRKEFVRFL
.SP.YFEPILNYLRHGQLIVNDGI.LLGVLEEARFFGIDSLIEHL.VAIKNSQPPEDH.PISRKEFVR.L
RetrocopyQSPGYFEPILNYLRHGQLIVNDGIDLLGVLEEARFFGIDSLIEHLKVAIKNSQPPEDHLPISRKEFVRCL
ParentalLATPTKSELRCQGLNFSGADLSRLDLRYINFKMANLSRCNLAHANLCCANLERADLSGSVLDCANLQGVK
LATPTKSE.RCQGLNFSGA.LS.LDLRYINFK..NL..CNLAHANLCCANLE.ADLSGSVLDCANLQGVK
RetrocopyLATPTKSEMRCQGLNFSGAELSHLDLRYINFKITNLNCCNLAHANLCCANLE*ADLSGSVLDCANLQGVK
Parental-MLCSNAEGASLKLCNFEDPSGLKANLEGANLKGVDMEGSQMTGINLRVATLKNAKLKNCNLRGATLAGT
.MLCSNAEGASLK.CNFEDPSGLKANLEGANLKGVDMEGSQMTGINLRVATLKNAKLKNC.LRGATL.GT
Retrocopy<MLCSNAEGASLKRCNFEDPSGLKANLEGANLKGVDMEGSQMTGINLRVATLKNAKLKNCSLRGATLTGT
ParentalDLENCDLSGCDLQEANLRGSNVKGAIFEEMLTPLHMSQSVR
DLENCDLSGCDLQEANLRGSNV.GA.FEEMLTPLH.SQSVR
RetrocopyDLENCDLSGCDLQEANLRGSNVRGARFEEMLTPLHVSQSVR

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 4 .67 RPM
SRP007412_cerebellum 0 .00 RPM 4 .95 RPM
SRP007412_heart 0 .00 RPM 16 .58 RPM
SRP007412_kidney 0 .00 RPM 5 .75 RPM
SRP007412_liver 0 .00 RPM 2 .39 RPM
SRP007412_testis 0 .00 RPM 8 .11 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_2825 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_2825 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_2825 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_4156
Gorilla gorilla retro_ggor_2791

Parental genes homology:
Parental genes homology involve 5 parental genes, and 12 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000121571 retrocopy
Homo sapiens ENSG000001047564 retrocopies
Macaca mulatta ENSMMUG000000101513 retrocopies
Pan troglodytes ENSPTRG000000096291 retrocopy
Pan troglodytes ENSPTRG00000020092 3 retrocopies
retro_ptro_1225, retro_ptro_2166, retro_ptro_2825 ,



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