RetrogeneDB - Retrocopy retro_tbel

                        
>retro_tbel_3907
GTGTTGGGAATGGCAGGATCAGGAAAAAACACTTTTGCACACAGGCTAACACGATACCTGCATAGCCAGGGCTCTCCACC

TTATGTGATAAACCTAGACCCAGCTGTGCATGAAGTCCCATTTCTTGCCATTATTGAATTTCGTGACATTGTGAAGTATA

AAGAAGTCATGAAACAATATGGACTTGGACCCAATGGAGGCATAGTTACCTCACTCAATCTCTTTGCTACCAGATTTGAT

CAGGTGATAAAATTTGTGGAGAAAGCCCAGAACATACCTAAATATGTCTTGATTGACACACCTGGACAGATTGAGGTGTT

TTCCTGGTCAGCTTCTGGGACAACCATCACTGAGGCTTTGACATCCTCATTTCCAACAGTTGTCATCTATGTAATGGACA

CATCACAAAGTACCAACCCAGTGACATTCATGTTCAATATGCTCTATGCCTGTAGCATCTTGTACAAAACCAAGCTACCT

TTCATTGTGGTCATGAACAAAATTGACATCATTGATCACAGCTTTGCAGTGGAATGGATGCAGGATTTTGAGGCTTTCCA

AGATGCCATAAATCGAGAGACCACATATGTCAGTAACCTGACTTGTTCCAAGAGCCAGGTGTTAGATGAGTTTTACAGCT

CACTCAGGGTAGTGGGTGTGTCTGAAGTTCTGGGTACCAGTTTAAATGAACTCTTATGCAAATCACCAGTGCTGCAGAAG

AATATGAAAGGGAGTATCTCCCTGAACATGAACGTCTGAAGAAATCACTGGCCAGTGTGTAGAGCCAACAGCAGAAAGAG

CAACTAGAATGCCTTCGGAAAGGTATGGGTTCTGTAGCCTTGGTCATGGGGACTTCCAAAGACAGTGCATCCTCTGTGCT

AGACCCTTCTGACCTGATCCTGACTCAAAGAACCTGGATGAAGAGGATGAGGAGGCAGACAGTGATACTGATGACATTGA

CCACAGAGTTACAGAGGAGAGCCATGAAGAACCAACTTTCCAGAATTTTATGCAAAATCAATGGCATAATACTGGAAGAG

GAATAACAAA

ORF - retro_tbel_3907 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	85.31 %
Parental protein coverage:	93.83 %
Number of stop codons detected:	2
Number of frameshifts detected:	3

Retrocopy - Parental Gene Alignment:

                                ParentalVLGMAGSGKTTFVQRLTGYLHSQGSPPYVINLDPAVHEVPFPANIDIRDTVKYKEVMKQYGLGPNGGIVT
VLGMAGSGK.TF..RLT.YLHSQGSPPYVINLDPAVHEVPF.A.I..RD.VKYKEVMKQYGLGPNGGIVT
RetrocopyVLGMAGSGKNTFAHRLTRYLHSQGSPPYVINLDPAVHEVPFLAIIEFRDIVKYKEVMKQYGLGPNGGIVT
ParentalSLNLFATRFDQVMKFIEKAQNMSKYVLIDTPGQIEVFTWSASGTIITEALASSFPTVVIYVMDTSRSTNP
SLNLFATRFDQV.KF.EKAQN..KYVLIDTPGQIEVF.WSASGT.ITEAL.SSFPTVVIYVMDTS.STNP
RetrocopySLNLFATRFDQVIKFVEKAQNIPKYVLIDTPGQIEVFSWSASGTTITEALTSSFPTVVIYVMDTSQSTNP
ParentalVTFMSNMLYACSILYKTKLPFIVVMNKTDIIDHSFAVEWMQDFEAFQDALNQETTYVSNLTRSMSLVLDE
VTFM.NMLYACSILYKTKLPFIVVMNK.DIIDHSFAVEWMQDFEAFQDA.N.ETTYVSNLT.S.S.VLDE
RetrocopyVTFMFNMLYACSILYKTKLPFIVVMNKIDIIDHSFAVEWMQDFEAFQDAINRETTYVSNLTCSKSQVLDE
ParentalFYSSLRVVGVSAVLGTGLDEL-FVQVTSAAEEYEREYRPEYERLKKSLASAQSQQQKEQLERLRKDMGSV
FYSSLRVVGVS.VLGT.L.EL...Q.TSAAEEYEREY.PE.ERLKKSLAS..SQQQKEQLE.LRK.MGSV
RetrocopyFYSSLRVVGVSEVLGTSLNEL<LMQITSAAEEYEREYLPEHERLKKSLASV*SQQQKEQLECLRKGMGSV
ParentalALDTGTSKDS-HTLWDLSDLILTRGT-LDEEDEEADSDTDDIDHRVTEESHEEPAFQNFMQ-ESMAQYWK
AL..GTSKDS.....D.SDLILT..T.LDEEDEEADSDTDDIDHRVTEESHEEP.FQNFMQ..SMA.YWK
RetrocopyALVMGTSKDSASSVLDPSDLILTQRT<LDEEDEEADSDTDDIDHRVTEESHEEPTFQNFMQ<KSMA*YWK
ParentalRNNK
RNNK
RetrocopyRNNK

                            

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

                        

RNA-Seq - click to see more details

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tupaia belangeri was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_tbel_3907 retrocopy.

TSS - click to see more details

Tupaia belangeri was not studied using FANTOM5 data.

Lab - click to see more details

retro_tbel_3907 was not experimentally validated.

Retrocopy orthology:

Tupaia belangeri 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 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000013421	1 retrocopy	retro_eeur_146,
Microcebus murinus	ENSMICG00000014941	1 retrocopy	retro_mmur_649,
Ictidomys tridecemlineatus	ENSSTOG00000006379	2 retrocopies	retro_itri_1428, retro_itri_1718,
Tupaia belangeri	ENSTBEG00000007425	1 retrocopy	retro_tbel_3907 ,

	RetrogeneDB ID:	retro_tbel_3907
Retrocopy location	Organism:	*Treeshrew (Tupaia belangeri)*
	Coordinates:	scaffold_3371:74654..75704(+)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	GPN1
	Ensembl ID:	ENSTBEG00000007425
	Aliases:	None
	Description:	GPN-loop GTPase 1 [Source:HGNC Symbol;Acc:17030]

Parental	VLGMAGSGKTTFVQRLTGYLHSQGSPPYVINLDPAVHEVPFPANIDIRDTVKYKEVMKQYGLGPNGGIVT
	VLGMAGSGK.TF..RLT.YLHSQGSPPYVINLDPAVHEVPF.A.I..RD.VKYKEVMKQYGLGPNGGIVT
Retrocopy	VLGMAGSGKNTFAHRLTRYLHSQGSPPYVINLDPAVHEVPFLAIIEFRDIVKYKEVMKQYGLGPNGGIVT

Parental	SLNLFATRFDQVMKFIEKAQNMSKYVLIDTPGQIEVFTWSASGTIITEALASSFPTVVIYVMDTSRSTNP
	SLNLFATRFDQV.KF.EKAQN..KYVLIDTPGQIEVF.WSASGT.ITEAL.SSFPTVVIYVMDTS.STNP
Retrocopy	SLNLFATRFDQVIKFVEKAQNIPKYVLIDTPGQIEVFSWSASGTTITEALTSSFPTVVIYVMDTSQSTNP

Parental	VTFMSNMLYACSILYKTKLPFIVVMNKTDIIDHSFAVEWMQDFEAFQDALNQETTYVSNLTRSMSLVLDE
	VTFM.NMLYACSILYKTKLPFIVVMNK.DIIDHSFAVEWMQDFEAFQDA.N.ETTYVSNLT.S.S.VLDE
Retrocopy	VTFMFNMLYACSILYKTKLPFIVVMNKIDIIDHSFAVEWMQDFEAFQDAINRETTYVSNLTCSKSQVLDE

Parental	FYSSLRVVGVSAVLGTGLDEL-FVQVTSAAEEYEREYRPEYERLKKSLASAQSQQQKEQLERLRKDMGSV
	FYSSLRVVGVS.VLGT.L.EL...Q.TSAAEEYEREY.PE.ERLKKSLAS..SQQQKEQLE.LRK.MGSV
Retrocopy	FYSSLRVVGVSEVLGTSLNEL<LMQITSAAEEYEREYLPEHERLKKSLASV*SQQQKEQLECLRKGMGSV

Parental	ALDTGTSKDS-HTLWDLSDLILTRGT-LDEEDEEADSDTDDIDHRVTEESHEEPAFQNFMQ-ESMAQYWK
	AL..GTSKDS.....D.SDLILT..T.LDEEDEEADSDTDDIDHRVTEESHEEP.FQNFMQ..SMA.YWK
Retrocopy	ALVMGTSKDSASSVLDPSDLILTQRT<LDEEDEEADSDTDDIDHRVTEESHEEPTFQNFMQ<KSMA*YWK

Parental	RNNK
	RNNK
Retrocopy	RNNK

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

RetrogeneDB ID:

retro_tbel_3907