RetrogeneDB ID:

retro_pabe_1082

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:13_random:9873128..9874395(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:STK25
Ensembl ID:ENSPPYG00000025879
Aliases:None
Description:serine/threonine kinase 25 [Source:HGNC Symbol;Acc:11404]


Retrocopy-Parental alignment summary:






>retro_pabe_1082
ATGGCTCACCTCCGGGGATTTGCCAACCAGCACTCTGGAGTGGACCCTGAAGAGCTCTTCACCAAGCTCGACTGCATTGG
CAAGGGCTCGTTTGGGTAGGTCTACAAGGGCATGGATAACCACACGAAGGAGGTGGTGGCCATCAAGATCGTCCACCTGG
AGGAGGCCGAGGATGAGATCGAGGACATGCAGCAGGAGATCACCGTCCTCAGCCAGTGCGACAGCCCCTACATCACCCGC
TACTTTGGCTCCTACCTAAAGAGCACCAAGCTATGGATCATCATGGAGTACCTGGGCGGCGGCTCAGCACTGGATTTGCT
TAAACCAGGTCCCCTGGAGGAGACGTACATTGCCACGATCCTGCGGGAGATTCTGAAGGGCCTGGATTATCTGCACTCCG
AACGCAAGATCCACCCAGACATCAAAGCTGCCAACGTGCTACTCTTGGAGCAGGGGGACGTGAAGCTGGTGGACTTTGGG
GTAGCAGGGCACCTCACAGACATGCAGATTAAGAGGAACACATTCGTGGGCACCCCCTTCTGGATGGCGCCTGAGGTCAT
CAAGCAGTCGGCCTACGACTTCAAGGCTGACATCTGGTCCCTGGGGATCACGGCCATCGAGCTGGCCAAGGGGGAGCCTC
CAAACTCTGACCTCCACCCCATGCGCGTCCTGTTCCTGATTCCCAAGAACAGCCCACCCACACTGGAGGGCCAGCACAGC
AAGCCCTTCAAGGAGTTCCTGGAGGCCTGCCTCAACAAGGACCTCCCAATTCCGGCCCACGGCCAAGGAGCTCCTGAAGC
ACAAATTCATGACACGCTACACCAAGAAGACTTCCTTCCTCACCGAGTTCATCCACCGCTATAAGCGCTGGAAGTCAGAG
GGGCATGGCGAGGAGTCCAGCTCTGAGGACTCTGACATTGATGGCGAGATGGAGGACGAGGAGCAGGGCCCCATCTGGAC
GTTCCCCCCTACCATCCGGCCGAGTCCACACAGCAAGCTTCACAAGGGGACGGCCCTGCATGGCTCACAGAAGCCTGCGG
AGCCCGTCAAGAGGCAGCCGAGGTTCCAGTGCCTGTCCACGCTGGTCCGGCCCGTCTTCGGAGAGCTCAAAGAGAAGCAC
AAGCAGAGCGGCGGAAGCCTGGGTGAGCTGGAGGAGCTGGAGAAGGCCTTCAGCCTGGCCGAGGAGTCCTGCCCTGGCAT
CTCAGACAAGCTGACGATGCACCTGGTGGAGCGAGTGCAGAGGTTTTCACACAACAGAAACCTGCTG

ORF - retro_pabe_1082 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.38 %
Parental protein coverage: 99.06 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAHLRGFANQHSRVDPEELFTKLDRIGKGSFGEVYKGIDNHTKEVVAIKIIDLEEAEDEIEDIQQEITVL
MAHLRGFANQHS.VDPEELFTKLD.IGKGSFG.VYKG.DNHTKEVVAIKI..LEEAEDEIED.QQEITVL
RetrocopyMAHLRGFANQHSGVDPEELFTKLDCIGKGSFG*VYKGMDNHTKEVVAIKIVHLEEAEDEIEDMQQEITVL
ParentalSQCDSPYITRYFGSYLKSTKLWIIMEYLGGGSALDLLKPGPLEETYIATILREILKGLDYLHSERKIHRD
SQCDSPYITRYFGSYLKSTKLWIIMEYLGGGSALDLLKPGPLEETYIATILREILKGLDYLHSERKIH.D
RetrocopySQCDSPYITRYFGSYLKSTKLWIIMEYLGGGSALDLLKPGPLEETYIATILREILKGLDYLHSERKIHPD
ParentalIKAANVLLSEQGDVKLADFGVAGQLTDTQIKRNTFVGTPFWMAPEVIKQSAYDFKADIWSLGITAIELAK
IKAANVLL.EQGDVKL.DFGVAG.LTD.QIKRNTFVGTPFWMAPEVIKQSAYDFKADIWSLGITAIELAK
RetrocopyIKAANVLLLEQGDVKLVDFGVAGHLTDMQIKRNTFVGTPFWMAPEVIKQSAYDFKADIWSLGITAIELAK
ParentalGEPPNSDLHPMRVLFLIPKNSPPTLEGQHSKPFKEFVEACLNKD-PRFRPTAKELLKHKFITRYTKKTSF
GEPPNSDLHPMRVLFLIPKNSPPTLEGQHSKPFKEF.EACLNKD...FRPTAKELLKHKF.TRYTKKTSF
RetrocopyGEPPNSDLHPMRVLFLIPKNSPPTLEGQHSKPFKEFLEACLNKD>SQFRPTAKELLKHKFMTRYTKKTSF
ParentalLTELIDRYKRWKSEGHGEESSSEDSDIDGEAEDGEQGPIWTFPPTIRPSPHSKLHKGTALHGSQKPAEPV
LTE.I.RYKRWKSEGHGEESSSEDSDIDGE.ED.EQGPIWTFPPTIRPSPHSKLHKGTALHGSQKPAEPV
RetrocopyLTEFIHRYKRWKSEGHGEESSSEDSDIDGEMEDEEQGPIWTFPPTIRPSPHSKLHKGTALHGSQKPAEPV
ParentalKRQPRSQCLSTLVRPVFGELKEKHKQSGGSVGALEELENAFSLAEESCPGISDKLMVHLVERVQRFSHNR
KRQPR.QCLSTLVRPVFGELKEKHKQSGGS.G.LEELE.AFSLAEESCPGISDKL..HLVERVQRFSHNR
RetrocopyKRQPRFQCLSTLVRPVFGELKEKHKQSGGSLGELEELEKAFSLAEESCPGISDKLTMHLVERVQRFSHNR
ParentalNHL
N.L
RetrocopyNLL

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 80 .17 RPM
SRP007412_cerebellum 0 .00 RPM 72 .47 RPM
SRP007412_heart 0 .00 RPM 26 .61 RPM
SRP007412_kidney 0 .00 RPM 64 .37 RPM
SRP007412_liver 0 .00 RPM 34 .86 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1082 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1082 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_1082 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 3 parental genes, and 7 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000060661 retrocopy
Gorilla gorilla ENSGGOG000000042671 retrocopy
Pongo abelii ENSPPYG00000025879 5 retrocopies



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