RetrogeneDB - Retrocopy retro_tbel

                        
>retro_tbel_4583
AAGTCAGGTTCTGGCATCCAAGCCGCCATCGACCTCACCGCGGGGGCGGCAGCCGGTACAGCTTGTGTACTGACCGGGCA

ACCCTTCGATACAATAAAGGTGAAGATGCAGACGTTCCCCGGCCTGTACAAGGGCCTCACTGACTGTTTCCTGAAGACTT

ACACGCAAGTGGGTTTCCGAGGCTTGTACAAGGGGACTGGCCCTGCCCTGATCGCCCATGTCTCCCAGAACTCCGTCCTC

TTCATGTGCTATGGCTTCTGCCAACAGTTTGTCAGAGCAGTGGTCGGGAGTGGACAAGCAGGCAAAGCTGAGTGATCTGC

AAACTGCAACGGCAGGGTCCTTGGCCTCTGCGTTTGCTGCCCTGGTCCTTTGCCCCACCGAGTTTGTGAAGTGCCGTCTC

CAGACCATGCACGAACTGGAGATGTCAGGGAAGATAGCAAAAAGCCACAAAACAATTTGGTCCGTCGTGACGAGTGTCCT

TAGAAAGGACGGCCCCTTGGGCTTCTACTACGGACTCTCAAGCACTCTGCTTCAGGAAGTACCGGGCTATTTCTTCTTCT

TTGGTGGCTATGAACTGAGCCGATCATTTTTTGCATCTGGACAATCAAAAGATGAACTGGGCCCAGTCCCTCTGATGGTA

AGTGGTGGAATTGCTGGAATTTGCCTCTGGCTTGTGGTGTTCCCAGTGGATTGCATTAAATCCAGAATTCAAGTTCTTTC

CATGTATGGAAAACAGGCAGGATTTATCAGTACCCTTTTAAGTGTTGTGAGAAATGAAGGAATCGGAGCCTTATATTCTG

GACTGAAAGCTACTATGATTCGTGCCGTCCCTGCCAATGGAGCACTATTTTTGGCCTATGAGCACAGCAGGAAGATGATG

ATGAGCCAGCTGGAAGCA

ORF - retro_tbel_4583 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	83.67 %
Parental protein coverage:	99.34 %
Number of stop codons detected:	0
Number of frameshifts detected:	1

Retrocopy - Parental Gene Alignment:

                                ParentalKSNPAIQAAIDLTAGAAGGTACVLTGQPFDTMKVKMQTFPDLYRGLTDCCLKTYSQVGFRGFYKGTSPAL
KS...IQAAIDLTAGAA.GTACVLTGQPFDT.KVKMQTFP.LY.GLTDC.LKTY.QVGFRG.YKGT.PAL
RetrocopyKSGSGIQAAIDLTAGAAAGTACVLTGQPFDTIKVKMQTFPGLYKGLTDCFLKTYTQVGFRGLYKGTGPAL
ParentalIANIAENSVLFMCYGFCQQVVRKVVG-LDKQAKLSDLQNAAAGSFASAFAALVLCPTELVKCRLQTMYEM
IA....NSVLFMCYGFCQQ.VR.VVG..DKQAKLSDLQ.A.AGS.ASAFAALVLCPTE.VKCRLQTM.E.
RetrocopyIAHVSQNSVLFMCYGFCQQFVRAVVG>VDKQAKLSDLQTATAGSLASAFAALVLCPTEFVKCRLQTMHEL
ParentalETSGKIAKSQNTVWSVVKSILRKDGPLGFYHGLSSTLLREVPGYFFFFGGYELSRSFFASGRSKDELGPV
E.SGKIAKS..T.WSVV.S.LRKDGPLGFY.GLSSTLL.EVPGYFFFFGGYELSRSFFASG.SKDELGPV
RetrocopyEMSGKIAKSHKTIWSVVTSVLRKDGPLGFYYGLSSTLLQEVPGYFFFFGGYELSRSFFASGQSKDELGPV
ParentalPLMLSGGVGGICLWLAVYPVDCIKSRIQVLSMSGKQAGFIGTFISVVKNEGITALYSGLKPTMIRAFPAN
PLM.SGG..GICLWL.V.PVDCIKSRIQVLSM.GKQAGFI.T..SVV.NEGI.ALYSGLK.TMIRA.PAN
RetrocopyPLMVSGGIAGICLWLVVFPVDCIKSRIQVLSMYGKQAGFISTLLSVVRNEGIGALYSGLKATMIRAVPAN
ParentalGALFLAYEYSRKLMMSQLEA
GALFLAYE.SRK.MMSQLEA
RetrocopyGALFLAYEHSRKMMMSQLEA

                            

                            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_4583 retrocopy.

TSS - click to see more details

Tupaia belangeri was not studied using FANTOM5 data.

Lab - click to see more details

retro_tbel_4583 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 14 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017797	1 retrocopy	retro_cjac_1776,
Cavia porcellus	ENSCPOG00000005570	2 retrocopies	retro_cpor_105, retro_cpor_107,
Equus caballus	ENSECAG00000007666	1 retrocopy	retro_ecab_72,
Homo sapiens	ENSG00000102743	1 retrocopy	retro_hsap_44,
Gorilla gorilla	ENSGGOG00000025261	1 retrocopy	retro_ggor_2294,
Microcebus murinus	ENSMICG00000007218	1 retrocopy	retro_mmur_18,
Macaca mulatta	ENSMMUG00000022585	1 retrocopy	retro_mmul_199,
Nomascus leucogenys	ENSNLEG00000001185	1 retrocopy	retro_nleu_1704,
Otolemur garnettii	ENSOGAG00000009380	1 retrocopy	retro_ogar_490,
Pongo abelii	ENSPPYG00000005307	1 retrocopy	retro_pabe_82,
Pan troglodytes	ENSPTRG00000005809	1 retrocopy	retro_ptro_2303,
Pteropus vampyrus	ENSPVAG00000010393	1 retrocopy	retro_pvam_15,
Ictidomys tridecemlineatus	ENSSTOG00000007840	1 retrocopy	retro_itri_726,
Tupaia belangeri	ENSTBEG00000017239	1 retrocopy	retro_tbel_4583 ,

	RetrogeneDB ID:	retro_tbel_4583
Retrocopy location	Organism:	*Treeshrew (Tupaia belangeri)*
	Coordinates:	scaffold_91913:4826..5724(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	ENSTBEG00000008345
	Aliases:	None
	Status:	KNOWN_PSEUDOGENE
Parental gene information	Parental gene summary:
	Parental gene symbol:	SLC25A15
	Ensembl ID:	ENSTBEG00000017239
	Aliases:	None
	Description:	solute carrier family 25 (mitochondrial carrier; ornithine transporter) member 15 [Source:HGNC Symbol;Acc:10985]

Parental	KSNPAIQAAIDLTAGAAGGTACVLTGQPFDTMKVKMQTFPDLYRGLTDCCLKTYSQVGFRGFYKGTSPAL
	KS...IQAAIDLTAGAA.GTACVLTGQPFDT.KVKMQTFP.LY.GLTDC.LKTY.QVGFRG.YKGT.PAL
Retrocopy	KSGSGIQAAIDLTAGAAAGTACVLTGQPFDTIKVKMQTFPGLYKGLTDCFLKTYTQVGFRGLYKGTGPAL

Parental	IANIAENSVLFMCYGFCQQVVRKVVG-LDKQAKLSDLQNAAAGSFASAFAALVLCPTELVKCRLQTMYEM
	IA....NSVLFMCYGFCQQ.VR.VVG..DKQAKLSDLQ.A.AGS.ASAFAALVLCPTE.VKCRLQTM.E.
Retrocopy	IAHVSQNSVLFMCYGFCQQFVRAVVG>VDKQAKLSDLQTATAGSLASAFAALVLCPTEFVKCRLQTMHEL

Parental	ETSGKIAKSQNTVWSVVKSILRKDGPLGFYHGLSSTLLREVPGYFFFFGGYELSRSFFASGRSKDELGPV
	E.SGKIAKS..T.WSVV.S.LRKDGPLGFY.GLSSTLL.EVPGYFFFFGGYELSRSFFASG.SKDELGPV
Retrocopy	EMSGKIAKSHKTIWSVVTSVLRKDGPLGFYYGLSSTLLQEVPGYFFFFGGYELSRSFFASGQSKDELGPV

Parental	PLMLSGGVGGICLWLAVYPVDCIKSRIQVLSMSGKQAGFIGTFISVVKNEGITALYSGLKPTMIRAFPAN
	PLM.SGG..GICLWL.V.PVDCIKSRIQVLSM.GKQAGFI.T..SVV.NEGI.ALYSGLK.TMIRA.PAN
Retrocopy	PLMVSGGIAGICLWLVVFPVDCIKSRIQVLSMYGKQAGFISTLLSVVRNEGIGALYSGLKATMIRAVPAN

Parental	GALFLAYEYSRKLMMSQLEA
	GALFLAYE.SRK.MMSQLEA
Retrocopy	GALFLAYEHSRKMMMSQLEA

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

RetrogeneDB ID:

retro_tbel_4583