RetrogeneDB - Retrocopy retro_tbel

                        
>retro_tbel_955
GGGTTCGGGTTCTGGAAACAACTGTGTGCCGAGCACGTATCAGCCCCAAGCGCATCGTGGAGGAGTTCGCCACCAAGGGC

ACTGACCTCAAGGACGTCTTTTTCTACCAGGCCGATGATGAGCACTACATCCCCTGGGCTGTGCTGCTGGACCTGGAGCC

CAGGGTGATCCACTGCATTCTCAACTGCCCCTATGACAAGCTCTACAACCCAGAGAACATCTAGCTGTCAGAGAACGGAG

GAGGAACTGGCAACAACTGGGCCAGTGGACTGTCTCAGGTAGAGAAGATCCATGAGGACATTTTTGACATCAAAGACCAG

GAGGCAGATGGCAGTGACAGTCTAGAGGGCTTTGTGCTGTGTCACTCCATCGCTGGTGGAACAGGCTCTGGCCTGGGCTC

CTACCTCTTAGAACGGCTGAATGACAGGTACCCCAAGAAGTTGGTGTGGATATACTCAGTGTTTCTCAACCAGGACAAGA

TGAGCGACATGGTGGTACAGCCCTACAACTCACTGCTCACCCTCAAGAGGCTGACCCAGAACACAGACTGCCTCGTGGTG

CTGGACAACACAGCCCTCAACCGGATCACCATGGATCGCCTGCACATCCAGAACTCATCCTTCTCCCAGATCAACCAGTT

GGTGTCCACCATCATGTCAGTCAGCACCACCACCCTGCGCTACCCCAGCTACATGAACAACGACCTCATCGGCCTGGTTG

CCTCACTCATCCCCACACCACAGTTCTACTTCCTCATGACAGGCTACAACCCCCTCACCACGGACCAGTCAGTGGCCAGC

GTGAGCAAGACTATGGTCTTGGATGTCATGAGGTGGCTGCTACAGCCCAAGAATGTTATGGTGTCCATAGGCCAGGACTG

CCAGACCAACCACTGCTACATCGCCATTCTCAACATCATCCAGGGG

ORF - retro_tbel_955 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	87.1 %
Parental protein coverage:	71.2 %
Number of stop codons detected:	1
Number of frameshifts detected:	1

Retrocopy - Parental Gene Alignment:

                                ParentalGFEFWKQLCAEH-GISPEGIVEEFATEGTDRKDVFFYQADDEHYIPRAVLLDLEPRVIHCILNSPYAKLY
GF.FWKQLCAEH..ISP..IVEEFAT.GTD.KDVFFYQADDEHYIP.AVLLDLEPRVIHCILN.PY.KLY
RetrocopyGFGFWKQLCAEH<RISPKRIVEEFATKGTDLKDVFFYQADDEHYIPWAVLLDLEPRVIHCILNCPYDKLY
ParentalNPENIYLSEHGGGAGNNWASGFSQGEKIHEDIFDIIDREADGSDSLEGFVLCHSIAGGTGSGLGSYLLER
NPENI.LSE.GGG.GNNWASG.SQ.EKIHEDIFDI.D.EADGSDSLEGFVLCHSIAGGTGSGLGSYLLER
RetrocopyNPENI*LSENGGGTGNNWASGLSQVEKIHEDIFDIKDQEADGSDSLEGFVLCHSIAGGTGSGLGSYLLER
ParentalLNDRYPKKLVQTYSVFPNQDEMSDVVVQPYNSLLTLKRLTQNADCVVVLDNTALNRIATDRLHIQNPSFS
LNDRYPKKLV..YSVF.NQD.MSD.VVQPYNSLLTLKRLTQN.DC.VVLDNTALNRI..DRLHIQN.SFS
RetrocopyLNDRYPKKLVWIYSVFLNQDKMSDMVVQPYNSLLTLKRLTQNTDCLVVLDNTALNRITMDRLHIQNSSFS
ParentalQINQLVSTIMSASTTTLRYPGYMNNDLIGLIASLIPTPRLHFLMTGYTPLTTDQSVASVRKTTVLDVMRR
QINQLVSTIMS.STTTLRYP.YMNNDLIGL.ASLIPTP...FLMTGY.PLTTDQSVASV.KT.VLDVMR.
RetrocopyQINQLVSTIMSVSTTTLRYPSYMNNDLIGLVASLIPTPQFYFLMTGYNPLTTDQSVASVSKTMVLDVMRW
ParentalLLQPKNVMVSTGRDRQTNHCYIAILNIIQG
LLQPKNVMVS.G.D.QTNHCYIAILNIIQG
RetrocopyLLQPKNVMVSIGQDCQTNHCYIAILNIIQG

                            

                            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_955 retrocopy.

TSS - click to see more details

Tupaia belangeri was not studied using FANTOM5 data.

Lab - click to see more details

retro_tbel_955 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000004907	1 retrocopy	retro_cjac_4142,
Echinops telfairi	ENSETEG00000008542	1 retrocopy	retro_etel_496,
Homo sapiens	ENSG00000131462	1 retrocopy	retro_hsap_3725,
Gorilla gorilla	ENSGGOG00000010899	1 retrocopy	retro_ggor_2515,
Macaca mulatta	ENSMMUG00000016797	1 retrocopy	retro_mmul_1692,
Nomascus leucogenys	ENSNLEG00000011686	1 retrocopy	retro_nleu_71,
Pongo abelii	ENSPPYG00000008384	1 retrocopy	retro_pabe_3132,
Pan troglodytes	ENSPTRG00000009211	1 retrocopy	retro_ptro_2520,
Rattus norvegicus	ENSRNOG00000020213	2 retrocopies	retro_rnor_2070, retro_rnor_2072,
Tupaia belangeri	ENSTBEG00000015835	3 retrocopies	retro_tbel_188, retro_tbel_3516, retro_tbel_955 ,

	RetrogeneDB ID:	retro_tbel_955
Retrocopy location	Organism:	*Treeshrew (Tupaia belangeri)*
	Coordinates:	GeneScaffold_3427:33092..34018(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	TUBG1
	Ensembl ID:	ENSTBEG00000015835
	Aliases:	None
	Description:	tubulin, gamma 1 [Source:HGNC Symbol;Acc:12417]

Parental	GFEFWKQLCAEH-GISPEGIVEEFATEGTDRKDVFFYQADDEHYIPRAVLLDLEPRVIHCILNSPYAKLY
	GF.FWKQLCAEH..ISP..IVEEFAT.GTD.KDVFFYQADDEHYIP.AVLLDLEPRVIHCILN.PY.KLY
Retrocopy	GFGFWKQLCAEH<RISPKRIVEEFATKGTDLKDVFFYQADDEHYIPWAVLLDLEPRVIHCILNCPYDKLY

Parental	NPENIYLSEHGGGAGNNWASGFSQGEKIHEDIFDIIDREADGSDSLEGFVLCHSIAGGTGSGLGSYLLER
	NPENI.LSE.GGG.GNNWASG.SQ.EKIHEDIFDI.D.EADGSDSLEGFVLCHSIAGGTGSGLGSYLLER
Retrocopy	NPENI*LSENGGGTGNNWASGLSQVEKIHEDIFDIKDQEADGSDSLEGFVLCHSIAGGTGSGLGSYLLER

Parental	LNDRYPKKLVQTYSVFPNQDEMSDVVVQPYNSLLTLKRLTQNADCVVVLDNTALNRIATDRLHIQNPSFS
	LNDRYPKKLV..YSVF.NQD.MSD.VVQPYNSLLTLKRLTQN.DC.VVLDNTALNRI..DRLHIQN.SFS
Retrocopy	LNDRYPKKLVWIYSVFLNQDKMSDMVVQPYNSLLTLKRLTQNTDCLVVLDNTALNRITMDRLHIQNSSFS

Parental	QINQLVSTIMSASTTTLRYPGYMNNDLIGLIASLIPTPRLHFLMTGYTPLTTDQSVASVRKTTVLDVMRR
	QINQLVSTIMS.STTTLRYP.YMNNDLIGL.ASLIPTP...FLMTGY.PLTTDQSVASV.KT.VLDVMR.
Retrocopy	QINQLVSTIMSVSTTTLRYPSYMNNDLIGLVASLIPTPQFYFLMTGYNPLTTDQSVASVSKTMVLDVMRW

Parental	LLQPKNVMVSTGRDRQTNHCYIAILNIIQG
	LLQPKNVMVS.G.D.QTNHCYIAILNIIQG
Retrocopy	LLQPKNVMVSIGQDCQTNHCYIAILNIIQG

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

RetrogeneDB ID:

retro_tbel_955