RetrogeneDB - Retrocopy retro_ttru

                        
>retro_ttru_1663
GCCAGGGACAGCCTCAGAGTCTTTTCCAGCCTCTGCCAGATTTTCTCTGAGGAGGATAATTATTCCCAGAGCCGGGAGCT

CCTCCTGCAGGAGGTGAAGCTGTAGCCTTCTCTGGAGCCAAATTCCAAGAAGTCACCGAGGTCTAGCTCCCAGAGTGAGA

GTGTGGTCCCATACCTTGGCACCTTCTTGAAGGACCTTGTGATGCTAGACGCAGCCTCCAAAGATGAGCTGGAGAATAGA

TACATCAGTTTTGACAAGCAGAGGAAAGGAGTTTACTGTCCTTTCTGAGCTGAGGCAGCTCCAGAACAAATGTCGTGGCT

ATGACCTCCGACCTGACCCCGATATCCAGCGGTAGGCTACAGGGGCTCCGTCCACTGACAGAGGCCCAGAGCCATCAAAT

GTCCTGTGAGGTGGAGCCATCCAGTACCAGTTACCCTCCTGCCCTGCAGGTGCTTCGGCCTACGCTGGTCATCTCGCAGT

GGACAGAGGTGCTGGGTTCTGTTGGAGGTCCCACACCCCTTGTCTCCTGGGACTGGCCCAGTGTGGTGGCAGAGGAGGTG

CCTGGAATCCCCGCTCCACTGCTGACCCGGCTGGCCCAGCACATGAAGTGGCCGTCTGTCTCATCTCTGGACTCCGCCCT

GGAAAGCACTCCAGCCCTGCAGAGTCCCGCTGATCCCAGCCACTTCTCTCCCCCAACTTCCTTCCTGAGGCCTTCTCGAG

GTCACTGCTGCTCAGCCTCCTGTGGCTCCCCACTCAGTGGGGGTGCAGAAGGGGCCTCCAGGGGGGCTGGATATGGGGGA

GAGGGGCCTGGGCCAGGGGCTTCTGATTGCCGCATCATCCAAGTCCAGATGGAGCTGGGGGAAGACAGCAGTGTCTACAA

GAGCATCTTGGTGACAAGCCAGGACAAGGCTCCAAGTGTCATCAGTCATGTCCTTAAGAAAAACAATCACGATTCTGCGG

TGGCTTCAGAGTATGAGCTAGTGCAGCTGCTCCCAGGGAAGCGAGAGCTGACTATCCCCCCCTCGGCTAACGTCTTCTAC

GCTATGGACGGAGCTTCACTCGATTTCCTCCTGCGGCAGCGGTGACGGCCCTCCACTGCTACAATGGGCCATGCCAGTGG

CCCTTCTGCCTCGGGAACTCCCCCAAGTGAGGGAAGAGGGGGTTCTTTTCCCAAGATCAAGGCCACAGGGAGGAAGATGG

CCCGAGCACTGTTC

ORF - retro_ttru_1663 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	85.96 %
Parental protein coverage:	51.66 %
Number of stop codons detected:	2
Number of frameshifts detected:	2

Retrocopy - Parental Gene Alignment:

                                ParentalARDSLRVFSSLCQIFSEEDNYSQSRELLLQEVKLQPSLEPNSKKSPRSGSRGGGVVPYLGTFLKDLVMLD
ARDSLRVFSSLCQIFSEEDNYSQSRELLLQEVKL.PSLEPNSKKSPRS.S....VVPYLGTFLKDLVMLD
RetrocopyARDSLRVFSSLCQIFSEEDNYSQSRELLLQEVKL*PSLEPNSKKSPRSSSQSESVVPYLGTFLKDLVMLD
ParentalAASKDELENGYINFDKRRK-EFAVLSELRQLQNKCRGYDLRPDPDIQR-WLQGLRPLTEAQSHQVSCEVE
AASKDELEN.YI.FDK.RK.EF.VLSELRQLQNKCRGYDLRPDPDIQR..LQGLRPLTEAQSHQ.SCEVE
RetrocopyAASKDELENRYISFDKQRK>EFTVLSELRQLQNKCRGYDLRPDPDIQR>RLQGLRPLTEAQSHQMSCEVE
ParentalPSSSSDPPAPRVLRPTLVISQWTEVLGSVGGPTPLVSWDWPNVGAEEVPATPAPLLTRLAQHMKWPSVSS
PSS.S.PPA..VLRPTLVISQWTEVLGSVGGPTPLVSWDWP.V.AEEVP..PAPLLTRLAQHMKWPSVSS
RetrocopyPSSTSYPPALQVLRPTLVISQWTEVLGSVGGPTPLVSWDWPSVVAEEVPGIPAPLLTRLAQHMKWPSVSS
ParentalLDSALESTPALQSPADPSHLSPPASSPRPSRGHRRSASCGSPLSGGAEGASRGPGYGGGGPGPGASDCRI
LDSALESTPALQSPADPSH.SPP.S..RPSRGH..SASCGSPLS.................GPGASDCRI
RetrocopyLDSALESTPALQSPADPSHFSPPTSFLRPSRGHCCSASCGSPLSXXXXXXXXXXXXXXXXXGPGASDCRI
ParentalIRVQMELGEDGSVYKSILVTSQDKAPSVISRVLKKNNRDSAVASEYELVQLLPGERELTIPPSANVFYAM
I.VQMELGED.SVYKSILVTSQDKAPSVIS.VLKKNN.DSAVASEYELVQLLPG.RELTIPPSANVFYAM
RetrocopyIQVQMELGEDSSVYKSILVTSQDKAPSVISHVLKKNNHDSAVASEYELVQLLPGKRELTIPPSANVFYAM
ParentalDGASLDFLLRQRRRPSTATLGRASGPSASGTPPSEGGGGSFPRIKAKGRKIARALF
DGASLDFLLRQR.RPSTAT.G.ASGPSASGTPPSEG.GGSFP.IKA.GRK.ARALF
RetrocopyDGASLDFLLRQR*RPSTATMGHASGPSASGTPPSEGRGGSFPKIKATGRKMARALF

                            

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

                        

RNA-Seq - click to see more details

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tursiops truncatus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ttru_1663 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_1663 was not experimentally validated.

Retrocopy orthology:

Tursiops truncatus 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Tursiops truncatus	ENSTTRG00000004164	1 retrocopy	retro_ttru_288,
Tursiops truncatus	ENSTTRG00000004307	1 retrocopy	retro_ttru_1663 ,

	RetrogeneDB ID:	retro_ttru_1663
Retrocopy location	Organism:	*Dolphin (Tursiops truncatus)*
	Coordinates:	scaffold_84242:5555..6769(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	RGL2
	Ensembl ID:	ENSTTRG00000004307
	Aliases:	None
	Description:	ral guanine nucleotide dissociation stimulator-like 2 [Source:HGNC Symbol;Acc:9769]

Parental	ARDSLRVFSSLCQIFSEEDNYSQSRELLLQEVKLQPSLEPNSKKSPRSGSRGGGVVPYLGTFLKDLVMLD
	ARDSLRVFSSLCQIFSEEDNYSQSRELLLQEVKL.PSLEPNSKKSPRS.S....VVPYLGTFLKDLVMLD
Retrocopy	ARDSLRVFSSLCQIFSEEDNYSQSRELLLQEVKL*PSLEPNSKKSPRSSSQSESVVPYLGTFLKDLVMLD

Parental	AASKDELENGYINFDKRRK-EFAVLSELRQLQNKCRGYDLRPDPDIQR-WLQGLRPLTEAQSHQVSCEVE
	AASKDELEN.YI.FDK.RK.EF.VLSELRQLQNKCRGYDLRPDPDIQR..LQGLRPLTEAQSHQ.SCEVE
Retrocopy	AASKDELENRYISFDKQRK>EFTVLSELRQLQNKCRGYDLRPDPDIQR>RLQGLRPLTEAQSHQMSCEVE

Parental	PSSSSDPPAPRVLRPTLVISQWTEVLGSVGGPTPLVSWDWPNVGAEEVPATPAPLLTRLAQHMKWPSVSS
	PSS.S.PPA..VLRPTLVISQWTEVLGSVGGPTPLVSWDWP.V.AEEVP..PAPLLTRLAQHMKWPSVSS
Retrocopy	PSSTSYPPALQVLRPTLVISQWTEVLGSVGGPTPLVSWDWPSVVAEEVPGIPAPLLTRLAQHMKWPSVSS

Parental	LDSALESTPALQSPADPSHLSPPASSPRPSRGHRRSASCGSPLSGGAEGASRGPGYGGGGPGPGASDCRI
	LDSALESTPALQSPADPSH.SPP.S..RPSRGH..SASCGSPLS.................GPGASDCRI
Retrocopy	LDSALESTPALQSPADPSHFSPPTSFLRPSRGHCCSASCGSPLSXXXXXXXXXXXXXXXXXGPGASDCRI

Parental	IRVQMELGEDGSVYKSILVTSQDKAPSVISRVLKKNNRDSAVASEYELVQLLPGERELTIPPSANVFYAM
	I.VQMELGED.SVYKSILVTSQDKAPSVIS.VLKKNN.DSAVASEYELVQLLPG.RELTIPPSANVFYAM
Retrocopy	IQVQMELGEDSSVYKSILVTSQDKAPSVISHVLKKNNHDSAVASEYELVQLLPGKRELTIPPSANVFYAM

Parental	DGASLDFLLRQRRRPSTATLGRASGPSASGTPPSEGGGGSFPRIKAKGRKIARALF
	DGASLDFLLRQR.RPSTAT.G.ASGPSASGTPPSEG.GGSFP.IKA.GRK.ARALF
Retrocopy	DGASLDFLLRQR*RPSTATMGHASGPSASGTPPSEGRGGSFPKIKATGRKMARALF

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

RetrogeneDB ID:

retro_ttru_1663