RetrogeneDB - Retrocopy retro_shar

						
>retro_shar_108
ATGGCCTGGGTGCTGAAGATGGACAAGGCAGTGGAAACGGGCCTGGTCCACGACTTCGACGCCAGCTTGTCGGGCATCGG

GCAAGAGCTGGGCGCGGGCGCCTACAGCATGAGTGACGTCTTGGCCCTACCCATTTTCAAGGAGGAAGATGCTGGCCTTC

CATTGGACGGTGACGCCAAGCAGCCGCCCTTTCAGTACATCTTGTATGCTGCGACCTCCCCTGCGGTCAAATTACATGAT

GAAAGCCTCACTTACTTGAACCAAGGTCAGTCCTATGAAATCCGGATGCTGGACAACCGGAAGGTGGGAGAGATGCCCGA

GATCAATGGGAAGCTGGTGAAGAGCATTATCAGAGTGGTGTTCCATGACCGAAGGCTCCAGTACACAGAGCACCAGCAGC

TGGAAGGCTGGAAGTGGAATCGCCCTGGGGACCGCTTGCTTGATCTCGATATTCCGATGTCTGTGGGTGTCATCGACCTG

AGGACCAACCCAGGCCAGTTGAATGCCGTTGAGTTTCTCTGGGATCCTGCAAAGCGCACGTCCGTGTTTATTCAGGTACA

CTGCATCAGCACGGAGTTCACTCCGCGGAAGCATGGCGGGGAGAAGGGGGTTTCTTTCAGAGTCCAAGTTGACACATTTA

AACAGAATGAAAACGGTGACTACACTGATCACCTGCACTCAGCGAGCTGCCAGATTAAAGTTTTTAAGCCTAAAGGAGCA

GACAGAAAACAGAAAACTGACCGAGAAAAGATGGAGAAGAGGACGGCTCAGGAGAAAGAAAAGTACCAGCCTTCATATGA

GACTACAGTCCTCAGTGAGTGCTCCCCGTGGCCTGTTGCAAGTGGAGCCTATGGAAGTGATAGCCCTGCTCCTGCTCCCA

CTTTCACCTCTGCTCAGCACCCCACCTTCAGTGTCCCAGATAGCAGTTCTACCTCCCCAAACCATCAAGGAGAGGGAATT

CCCCAAAGCTCCAGTGAACGGATTTATCCAACAGCCACCATCCAAGAAGTTCAACAGTGGCTGGCCAGGAACAGGTTCTC

CAGCTATGCCAGGCTCTTCACCAATTTCTCAGGCGCAGATTTATTCAAGTTGACAAGAGAGGATCTCATACAAATCTGTG

GTGCAGCTGAAGGCATTCGTCTCTATAATTCACTGAAGTCAAGGACTATTCGACCTCGTCTCACGATCTACGCCTGCCAG

GAGCAGCCCAGGACCAGACTGATGGTAAGACCAAATACAGGCCAAGGAGAACAAAGCAGTAGTGCAATATTTGTTTATCA

TGCGATCTACCTGGAAGAAGTGGCAGCTTCAGAAGTCACTCGGAAATTGGCTTCAATATTTAATATTCCTCTGCACCAGA

TCAACCAGGTTTACAGACAGGGTCCTACCGGGATTTACATTCTCCTTAGCGACCAGGTGGTTCAAAATTTTCAAGATGAG

AGTTCTTTCTTATTTGCCACTCTAAAAGCAGAAAATGGCGAAGGGCTCCATATCCTTTTGAAATGA

ORF - retro_shar_108 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	75.35 %
Parental protein coverage:	100. %
Number of stop codons detected:	0
Number of frameshifts detected	0

Retrocopy - Parental Gene Alignment:

									ParentalMAWALKLPLADEVIESGLVQDFDSSLSGIGQELGAGAYSMSDVLALPIFKQEESSLPTDNENKILPFQYV
		MAW.LK....D...E.GLV.DFD.SLSGIGQELGAGAYSMSDVLALPIFK.E...LP.D...K..PFQY.
RetrocopyMAWVLKM---DKAVETGLVHDFDASLSGIGQELGAGAYSMSDVLALPIFKEEDAGLPLDGDAKQPPFQYI
ParentalLCAATSPAVKLHDETLTYLNQGQSYEIRMLDNRKLGELPEINGKLVKSIFRVVFHDRRLQYTEHQQLEGW
		L.AATSPAVKLHDE.LTYLNQGQSYEIRMLDNRK.GE.PEINGKLVKSI.RVVFHDRRLQYTEHQQLEGW
RetrocopyLYAATSPAVKLHDESLTYLNQGQSYEIRMLDNRKVGEMPEINGKLVKSIIRVVFHDRRLQYTEHQQLEGW
ParentalRWNRPGDRILDIDIPMSVGIIDPRANPTQLNTVEFLWDPAKRTSVFIQVHCISTEFTMRKHGGEKGVPFR
		.WNRPGDR.LD.DIPMSVG.ID.R.NP.QLN.VEFLWDPAKRTSVFIQVHCISTEFT.RKHGGEKGV.FR
RetrocopyKWNRPGDRLLDLDIPMSVGVIDLRTNPGQLNAVEFLWDPAKRTSVFIQVHCISTEFTPRKHGGEKGVSFR
ParentalVQIDTFKENENGEYTEHLHSASCQIKVFKPKGADRKQKTDREKMEKRTPHEKEKYQPSYETTILTECSPW
		VQ.DTFK.NENG.YT.HLHSASCQIKVFKPKGADRKQKTDREKMEKRT..EKEKYQPSYETT.L.ECSPW
RetrocopyVQVDTFKQNENGDYTDHLHSASCQIKVFKPKGADRKQKTDREKMEKRTAQEKEKYQPSYETTVLSECSPW
ParentalPEIT--YVNNSPSPG---FNSSHSSFSLGEGNG-SPNHQPEP-PPPVADNLLPTTTPQEAQQWLHRNRFS
		P.....Y...SP.P........H..FS.......SPNHQ.E..P........PT.T.QE.QQWL.RNRFS
RetrocopyPVASGAYGSDSPAPAPTFTSAQHPTFSVPDSSSTSPNHQGEGIPQSSSERIYPTATIQEVQQWLARNRFS
ParentalTFSRLFTNFSG
		...RLFTNFSG
RetrocopySYARLFTNFSG

							

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

						

RNA-Seq - click to see more details

Sarcophilus harrisii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Sarcophilus harrisii was not studied using ChIP-Seq data.

EST - click to see more details

Sarcophilus harrisii was not studied using EST data.

TSS - click to see more details

Sarcophilus harrisii was not studied using FANTOM5 data.

Lab - click to see more details

retro_shar_108 was not experimentally validated.

Retrocopy orthology:

Sarcophilus harrisii 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Sarcophilus harrisii	ENSSHAG00000000901	1 retrocopy	retro_shar_108 ,
Tursiops truncatus	ENSTTRG00000013836	2 retrocopies	retro_ttru_1138, retro_ttru_62,

	RetrogeneDB ID:	retro_shar_108
Retrocopy location	Organism:	*Tasmanian devil (Sarcophilus harrisii)*
	Coordinates:	GL850366.1:30537..32043(+)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	ENSSHAG00000002389
	Aliases:	None
	Status:	KNOWN_PROTEIN_CODING
Parental gene information	Parental gene summary:
	Parental gene symbol:	None
	Ensembl ID:	ENSSHAG00000000901
	Aliases:	None
	Description:	None

Parental	MAWALKLPLADEVIESGLVQDFDSSLSGIGQELGAGAYSMSDVLALPIFKQEESSLPTDNENKILPFQYV
	MAW.LK....D...E.GLV.DFD.SLSGIGQELGAGAYSMSDVLALPIFK.E...LP.D...K..PFQY.
Retrocopy	MAWVLKM---DKAVETGLVHDFDASLSGIGQELGAGAYSMSDVLALPIFKEEDAGLPLDGDAKQPPFQYI

Parental	LCAATSPAVKLHDETLTYLNQGQSYEIRMLDNRKLGELPEINGKLVKSIFRVVFHDRRLQYTEHQQLEGW
	L.AATSPAVKLHDE.LTYLNQGQSYEIRMLDNRK.GE.PEINGKLVKSI.RVVFHDRRLQYTEHQQLEGW
Retrocopy	LYAATSPAVKLHDESLTYLNQGQSYEIRMLDNRKVGEMPEINGKLVKSIIRVVFHDRRLQYTEHQQLEGW

Parental	RWNRPGDRILDIDIPMSVGIIDPRANPTQLNTVEFLWDPAKRTSVFIQVHCISTEFTMRKHGGEKGVPFR
	.WNRPGDR.LD.DIPMSVG.ID.R.NP.QLN.VEFLWDPAKRTSVFIQVHCISTEFT.RKHGGEKGV.FR
Retrocopy	KWNRPGDRLLDLDIPMSVGVIDLRTNPGQLNAVEFLWDPAKRTSVFIQVHCISTEFTPRKHGGEKGVSFR

Parental	VQIDTFKENENGEYTEHLHSASCQIKVFKPKGADRKQKTDREKMEKRTPHEKEKYQPSYETTILTECSPW
	VQ.DTFK.NENG.YT.HLHSASCQIKVFKPKGADRKQKTDREKMEKRT..EKEKYQPSYETT.L.ECSPW
Retrocopy	VQVDTFKQNENGDYTDHLHSASCQIKVFKPKGADRKQKTDREKMEKRTAQEKEKYQPSYETTVLSECSPW

Parental	PEIT--YVNNSPSPG---FNSSHSSFSLGEGNG-SPNHQPEP-PPPVADNLLPTTTPQEAQQWLHRNRFS
	P.....Y...SP.P........H..FS.......SPNHQ.E..P........PT.T.QE.QQWL.RNRFS
Retrocopy	PVASGAYGSDSPAPAPTFTSAQHPTFSVPDSSSTSPNHQGEGIPQSSSERIYPTATIQEVQQWLARNRFS

Parental	TFSRLFTNFSG
	...RLFTNFSG
Retrocopy	SYARLFTNFSG

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

RetrogeneDB ID:

retro_shar_108