RetrogeneDB - Retrocopy retro_meug

                        
>retro_meug_1995
CGCCTGCGCAACGTGGCAGATTACCAAGCCATAGAGGATGTAGAGTGGAACACCTTAAATGACAAGTTAGAGAAAAATTC

CAACTCGGGGGCCAAGGTCATTTTGTCCAAGGTCCTCACTAGGGATGTAGCTACGCAGTATTTCACTGACTGGGACATAT

TCTGTGCTGGCCGCTTCCCAGAGAAGCATCTGCGCAGGACTATGATGGCCTGTGGGGGCTCCATCCAGACTAGTGTTAGT

TCTTTGACCCACGATGTGCTGGGCAGCTGCAGGCTCTTTGAAGAGATACAGATTGGAAGCGAGAGGTACAATTTCTTCAC

TGGCTACCCCAAGGCCAAAACCTGCACAATCATCCTTCTAGGAGACACTGAGCAGTTCATGGAGGAGACAGAGCGATCCC

TCCCCAATGCCATCATGATTGTCCGCAGAGCCATCAAGAATGATTCGGTGATTGCAGGAGGTGAGGCAACTGAGATGGAG

TTCTCCAAATACTTGTGGGACTACTCAAGGACCATCCCTGCAAGCAGCAGCTACTGATCAGGGCCTATGCCAAGGCCCTG

GAGATCATCCCCCAACAGCTGTGCAACAACACTGGTTTCAATGCCACCAACATCCTCAACAAGCTCTGGGCCAAGCATGC

ACAGGGTGGCATGTGGTATGGCATGGACATCAACAATGAAGACTTTGCAGACAACTTTGAAGCTTTTGTGTGAAGCCTGC

CATGGTCCGCATCAATGCCCTGACTGCTGCTTCTGAGGCTGCTTGTCTCATTGTGTCCATGGATGAGACCGTTAAGAACC

CGTGCTTCACTGTGGATGGGCCCCCCCGTAGGCCAGGCCAAAGGCGAGGCCACCCTCAT

ORF - retro_meug_1995 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	78.2 %
Parental protein coverage:	53.05 %
Number of stop codons detected:	0
Number of frameshifts detected:	2

Retrocopy - Parental Gene Alignment:

                                ParentalRVHNVADYQAIVDAEWNILYDKLEKISNSGAKVVLSKLPIGDVATQYFADRDMFCAGRVPEEDLRRTMMA
R..NVADYQAI.D.EWN.L.DKLEK.SNSGAKV.LSK....DVATQYF.D.D.FCAGR.PE..LRRTMMA
RetrocopyRLRNVADYQAIEDVEWNTLNDKLEKNSNSGAKVILSKVLTRDVATQYFTDWDIFCAGRFPEKHLRRTMMA
ParentalCGGSIQTSVNSLTPDVLGSCQLFEETQIGGERYNFFTGCPKAKTCTIILRGGAEQFMEETERSLHDAIMI
CGGSIQTSV.SLT.DVLGSC.LFEE.QIG.ERYNFFTG.PKAKTCTIIL.G..EQFMEETERSL..AIMI
RetrocopyCGGSIQTSVSSLTHDVLGSCRLFEEIQIGSERYNFFTGYPKAKTCTIILLGDTEQFMEETERSLPNAIMI
ParentalVRRAIKXXXXXXXGGAIEMELSKYLRDYSRTIPG-KQQLLIGAYAKALEIIPRQLCDNAGFDATNILNKL
VRRAIK.......G.A.EME.SKYL.DYSRTIP..KQQLLI.AYAKALEIIP.QLC.N.GF.ATNILNKL
RetrocopyVRRAIKNDSVIAGGEATEMEFSKYLWDYSRTIPA<KQQLLIRAYAKALEIIPQQLCNNTGFNATNILNKL
ParentalRAKHAQGGMWYGVDINNEDIADNFEAFV-WEPAMVRINALTAASEAACLIVSVDETIKNPRSTVDGPPVG
.AKHAQGGMWYG.DINNED.ADNFEAFV...PAMVRINALTAASEAACLIVS.DET.KNP..TVDGPP..
RetrocopyWAKHAQGGMWYGMDINNEDFADNFEAFV<VKPAMVRINALTAASEAACLIVSMDETVKNPCFTVDGPPRR
ParentalRGRGRGRPH
.G..RG.PH
RetrocopyPGQRRGHPH

                            

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

                        

RNA-Seq - click to see more details

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Macropus eugenii was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_meug_1995 retrocopy.

TSS - click to see more details

Macropus eugenii was not studied using FANTOM5 data.

Lab - click to see more details

retro_meug_1995 was not experimentally validated.

Retrocopy orthology:

Macropus eugenii 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 15 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008879	1 retrocopy	retro_cfam_151,
Choloepus hoffmanni	ENSCHOG00000007937	1 retrocopy	retro_chof_2313,
Cavia porcellus	ENSCPOG00000019869	1 retrocopy	retro_cpor_1458,
Echinops telfairi	ENSETEG00000009409	2 retrocopies	retro_etel_1478, retro_etel_607,
Homo sapiens	ENSG00000135624	1 retrocopy	retro_hsap_3354,
Gorilla gorilla	ENSGGOG00000007766	1 retrocopy	retro_ggor_2274,
Macropus eugenii	ENSMEUG00000000416	1 retrocopy	retro_meug_1995 ,
Macaca mulatta	ENSMMUG00000012448	1 retrocopy	retro_mmul_2093,
Nomascus leucogenys	ENSNLEG00000010414	1 retrocopy	retro_nleu_1175,
Otolemur garnettii	ENSOGAG00000009162	2 retrocopies	retro_ogar_2001, retro_ogar_2698,
Pongo abelii	ENSPPYG00000012297	1 retrocopy	retro_pabe_2760,
Pan troglodytes	ENSPTRG00000012060	1 retrocopy	retro_ptro_2133,
Rattus norvegicus	ENSRNOG00000015630	2 retrocopies	retro_rnor_2179, retro_rnor_535,
Sorex araneus	ENSSARG00000011475	1 retrocopy	retro_sara_539,
Tupaia belangeri	ENSTBEG00000002066	2 retrocopies	retro_tbel_3708, retro_tbel_3751,

	RetrogeneDB ID:	retro_meug_1995
Retrocopy location	Organism:	*Wallaby (Macropus eugenii)*
	Coordinates:	Scaffold7761:16869..17728(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	CCT7
	Ensembl ID:	ENSMEUG00000000416
	Aliases:	None
	Description:	chaperonin containing TCP1, subunit 7 (eta) [Source:HGNC Symbol;Acc:1622]

Parental	RVHNVADYQAIVDAEWNILYDKLEKISNSGAKVVLSKLPIGDVATQYFADRDMFCAGRVPEEDLRRTMMA
	R..NVADYQAI.D.EWN.L.DKLEK.SNSGAKV.LSK....DVATQYF.D.D.FCAGR.PE..LRRTMMA
Retrocopy	RLRNVADYQAIEDVEWNTLNDKLEKNSNSGAKVILSKVLTRDVATQYFTDWDIFCAGRFPEKHLRRTMMA

Parental	CGGSIQTSVNSLTPDVLGSCQLFEETQIGGERYNFFTGCPKAKTCTIILRGGAEQFMEETERSLHDAIMI
	CGGSIQTSV.SLT.DVLGSC.LFEE.QIG.ERYNFFTG.PKAKTCTIIL.G..EQFMEETERSL..AIMI
Retrocopy	CGGSIQTSVSSLTHDVLGSCRLFEEIQIGSERYNFFTGYPKAKTCTIILLGDTEQFMEETERSLPNAIMI

Parental	VRRAIKXXXXXXXGGAIEMELSKYLRDYSRTIPG-KQQLLIGAYAKALEIIPRQLCDNAGFDATNILNKL
	VRRAIK.......G.A.EME.SKYL.DYSRTIP..KQQLLI.AYAKALEIIP.QLC.N.GF.ATNILNKL
Retrocopy	VRRAIKNDSVIAGGEATEMEFSKYLWDYSRTIPA<KQQLLIRAYAKALEIIPQQLCNNTGFNATNILNKL

Parental	RAKHAQGGMWYGVDINNEDIADNFEAFV-WEPAMVRINALTAASEAACLIVSVDETIKNPRSTVDGPPVG
	.AKHAQGGMWYG.DINNED.ADNFEAFV...PAMVRINALTAASEAACLIVS.DET.KNP..TVDGPP..
Retrocopy	WAKHAQGGMWYGMDINNEDFADNFEAFV<VKPAMVRINALTAASEAACLIVSMDETVKNPCFTVDGPPRR

Parental	RGRGRGRPH
	.G..RG.PH
Retrocopy	PGQRRGHPH

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

RetrogeneDB ID:

retro_meug_1995