RetrogeneDB ID:

retro_ogar_2202

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873601.1:7552510..7554217(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PRPF6
Ensembl ID:ENSOGAG00000007573
Aliases:None
Description:pre-mRNA processing factor 6 [Source:HGNC Symbol;Acc:15860]


Retrocopy-Parental alignment summary:






>retro_ogar_2202
CACCCACCAGTGTGGAATGCGTCAGCCCGCCTCGAAGAAGTCACTGGGAAGCTGCAAGTAGCTCGGAACCTTATCATGAA
GGGGACAGAGATGTGCCCCAAGAGTGAAGACGTGTGGTTAGAAGCAGCCAGGTTGCAGCCTGGGGACACTGACAAGGCTG
TGGTGGCCCAAGCTGTCCGGCATCTCCCACAGTCTGTTAGGATTTATATCAGAGCAGCAGAGCTGGAAACAGACATTCAA
GCAAAGAAGCGGGTTCTTTGGAAAGCTTTTGAGCATGTCCCAAACTCGGTTCGCTTGTGGAAAGCAGCCATTGAACTGGA
AGAGCCTGAAGATGCTAGATTCATGCTCAGCCGTGCTATGGAGTGCTGCCCCACCAGCGTGGAGCTCTGGCTTGCTCTGG
CAAGGCTGGAGACCTATGAAAATGCCCAAAAGGTCTTGAACAAAGCAGATGAGAACATTCCTACTGACCGGCACATCTGG
ATCACTGCTGCCAAACTGGAGGAGGCCAGTGGGAACACACAGATGGTGGAGAAGATCATTGACAGGGCTATCACTTCTCT
GCGGGCCAATGGTGTAGAGATCAACCATGAGCAGTGGATTCAGGATGCCGAGGAATGTGACAGGGCAGGGAGCGTGGCCA
CCTGCTAGGCAGTCATGCGCGCTGTGATTGGCATCGGGATTGAGGAGGAGGATCGGAAGCACACCTGGATGAAAGATGCA
GATAGTTGCGTGGCCCACAGTGCCCTGGAGTGCGCATGCGCCCTCTATGCCTACGCCCTGCAGGTGTTCCCCAGCAAGAG
GAGCGTGTGGCTACGAGCTGCATACTTTGAGAAGAACCACGGCACCAGGGAGTCCCTGGAAGCCCTCCTGCAGAGGGCTG
TGGCTCATTGCCCGAAAGCGGAGGTGCTACGGCTCATGGGAGCCAAGTCCAAGTGGCTGGCAGGGGATGTGCCCGCAGCA
AGGAGCATCTTGGCTCTGGCCTTCCAGGCTAACCCCAACAGCGAGTAGATCTGGCTGGCAGCCGTGAAGCTGGAGTCCCA
GAACAATGAGTACGAGCGGGCTCAGAGGCTGCTGGCTAAGGCACGGAGCAGTGCACCCACTGCTCGGGTGTTCATGAAGT
CTGTGAAGCTGGAGTGGGTGTTGGGCGGCACCGCAGCCGCGCAGGAGCTGTGTGAGGAGGCCTTGCGTCTGTATGAGGAC
TTCCCCAAGCTGTGGATGATGAAGGGGCAGATGGAGGAGCAGGAAGGGCAGATGGAGAAGGCACACAAGGCCTACAGCCA
GGGGTTGAAGAAGTGTCCCAACTCTACACCCCTGGGGCTTTTGCTCTCACAGCTGGAAGAGAAGATTGGGCAGCTCACCC
GGGCATGGGCTACTCTGGAGAAGTCTCATCTGAGGAACCCAAAGAACCCTGAGCTATGGCTGGAGTCTGTGTGGCTGGAG
TACTGTGCGGGGCTGAAGAACATTGCCGACACTCTCATGACCAAGGCACTGCAGGAGTGCCCCAACTCCGGTATCCTGTG
GTCTGAAGCCATTTTCCTTGAGGCAAGGCCCCAGAGGGAGACGAAGTGCGTGGATGCCCTGAATAAGCGTGAACACGATC
CCCATGTGCTCCTGGCTGTGGCCAAGCTGCTTTGGAGCGAGCGGAAGATCACCAAGGCCAGGGAGTGGTTCCACCGCACC
GTGAAGATTGAGCCAGACCTGGGGGAT

ORF - retro_ogar_2202 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.32 %
Parental protein coverage: 61.29 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalNPPPPTISTVESSSVGMLKPSWDLRFCSTGMCLSHSEDVWLEAARLQPGDTAKAVVAQAVRHLPQSVRIY
.PP....S.......G.L.....L....T.MC...SEDVWLEAARLQPGDT.KAVVAQAVRHLPQSVRIY
RetrocopyHPPVWNASARLEEVTGKLQVARNLIMKGTEMC-PKSEDVWLEAARLQPGDTDKAVVAQAVRHLPQSVRIY
ParentalIRAAELETDIRAKKRVLRKALEHVPNSVRLWKAAVELEEPEDARIMLSRAVECCPTSVELWLALARLETY
IRAAELETDI.AKKRVL.KA.EHVPNSVRLWKAA.ELEEPEDAR.MLSRA.ECCPTSVELWLALARLETY
RetrocopyIRAAELETDIQAKKRVLWKAFEHVPNSVRLWKAAIELEEPEDARFMLSRAMECCPTSVELWLALARLETY
ParentalENARKVLNKARENIPTDRHIWITAAKLEEANGNTQMVEKIIDRAITSLRANGVEINREQWIQDAEECDRA
ENA.KVLNKA.ENIPTDRHIWITAAKLEEA.GNTQMVEKIIDRAITSLRANGVEIN.EQWIQDAEECDRA
RetrocopyENAQKVLNKADENIPTDRHIWITAAKLEEASGNTQMVEKIIDRAITSLRANGVEINHEQWIQDAEECDRA
ParentalGSVATCQAVMRAVIGIGIEEEDRKHTWMEDADSCVAHSALECARAIYAYALQVFPSKKSVWLRAAYFEKN
GSVATC.AVMRAVIGIGIEEEDRKHTWM.DADSCVAHSALECA.A.YAYALQVFPSK.SVWLRAAYFEKN
RetrocopyGSVATC*AVMRAVIGIGIEEEDRKHTWMKDADSCVAHSALECACALYAYALQVFPSKRSVWLRAAYFEKN
ParentalHGTRESLEALLQRAVAHCPKAEVLWLMGAKSKWLAGDVPAARSILALAFQANPNSEEIWLAAVKLESENN
HGTRESLEALLQRAVAHCPKAEVL.LMGAKSKWLAGDVPAARSILALAFQANPNSE.IWLAAVKLES.NN
RetrocopyHGTRESLEALLQRAVAHCPKAEVLRLMGAKSKWLAGDVPAARSILALAFQANPNSE*IWLAAVKLESQNN
ParentalEYERARRLLAKARSSAPTARVFMKSVKLEWVLGSIAAAQELCEEALRPYEDFPKLWMMKGQIEEQEGQME
EYERA.RLLAKARSSAPTARVFMKSVKLEWVLG..AAAQELCEEALR.YEDFPKLWMMKGQ.EEQEGQME
RetrocopyEYERAQRLLAKARSSAPTARVFMKSVKLEWVLGGTAAAQELCEEALRLYEDFPKLWMMKGQMEEQEGQME
ParentalKAREAYSQGLKKCPHSTPLWLLLSRLEEKIGQLTRARAILEKSRLRNPKNPELWLESVRLEYRAGLKNIA
KA..AYSQGLKKCP.STPL.LLLS.LEEKIGQLTRA.A.LEKS.LRNPKNPEL...........GLKNIA
RetrocopyKAHKAYSQGLKKCPNSTPLGLLLSQLEEKIGQLTRAWATLEKSHLRNPKNPELXXXXXXXXXXXGLKNIA
ParentalNTLMAKALQECPNSGILWSEAIFLEARPQRKTKSVDALKKCEHDPHVLLAVAKLFWSERKITKAREWFHR
.TLM.KALQECPNSGILWSEAIFLEARPQR.TK.VDAL.K.EHDPHVLLAVAKL.WSERKITKAREWFHR
RetrocopyDTLMTKALQECPNSGILWSEAIFLEARPQRETKCVDALNKREHDPHVLLAVAKLLWSERKITKAREWFHR
ParentalTVKIDSDLGD
TVKI..DLGD
RetrocopyTVKIEPDLGD

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Otolemur garnettii was not studied using ChIP-Seq data.

EST - click to see more details

Otolemur garnettii was not studied using EST data.

TSS - click to see more details

Otolemur garnettii was not studied using FANTOM5 data.

Lab - click to see more details

retro_ogar_2202 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.
Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Otolemur garnettii ENSOGAG00000007573 1 retrocopy
retro_ogar_2202 ,


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