RetrogeneDB - Retrocopy retro_ttru

                        
>retro_ttru_1078
AATTCTCTTGAATATTGTCAGAAACAAATCTTAATGGAAAATGCTGAGCTTAAGAAAGTTTTTCAGCAAATGAAAAAGGA

AATAATTTCTCTTCTTTCTCCCCAAAAGCAGAAACCTAGAGAAAGAGCAGATGATAGTACAGGAACTGTTATCCCTGATA

CTGAAGATGCTGGGGAACTGAATAGAGAGAGTACGTTTCACCTTTCCTGTGCAACTGTGAGAGAGCAGCTTACCAATAGC

ATCAGAAAACAGTAGAGAATTTTGAAAAGTCACGTAGAAAAACTTGATAACCAAGTTTCAAAGGTACACCTAGAAGGTTT

TAATGATGAAGATGTAATCTCACGACAAGACCACGAACAAGAAACTGAAAAACTTGAGTTAGAAATTCAACAGCGTAAAG

AAATTATTAAAACTCGGCAGCAACTTTTACAGCAGCAGCTCGCTACTGCATGTGATGATGACACCACTTCACTGCTACAA

GACTGTTACTTGTTGGAAGAAAAGGAACGCCTCAAAGAAGAACGGTCCCTATTTAAAGAGCAAAAGAAGAATTTCGAGAA

AGAAAGACTAAGCTTTACAGAAGCAGCTATTCGCCTAGGATTGGAGAGAAAGGCATTTGAAGAAGAAAGAGCCAGTTGGG

TAAATCAACAGTTTTTAAATATGACTACCTAGGACCACCAGAGCTCAGAAAATGTGAAACTTTTCAGTGCGTTCTCAGGA

AGTTCGGATTGGGACAACCCTACAGTACACTCGAGGCCACGGCAAAAGAAACCTCACGGTGTGCCTACTGGGTCTCCACT

TAGCAAGTCTAAACTTATTAAATCTCTTCCTGCTTCTCCTTCTACTTCCGACTTTTGCCAGACACGTGCCTGTGTATCTG

AACATAGTTCAATCAATGTACTAAATATAACCCCTGAAGAATCTAAGCCATATCAAGTTGGAAGAGAATGTACAAATCAG

AAGTGGAGCGTGGTATCAAGGTCTGGATCACCGGAAGTTTGCTGTAATGGATGCTCCTCGACCCACGCAAACGCTCATGT

AGAGAAGGATGACTTACCT

ORF - retro_ttru_1078 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	87.57 %
Parental protein coverage:	57.59 %
Number of stop codons detected:	2
Number of frameshifts detected:	0

Retrocopy - Parental Gene Alignment:

                                ParentalNDYEYRQKQILMENAELKKVLQQMKKEMISLLSPQKQKPRERADDSTGTVISDIEEDAGELSRESTWDLS
N..EY.QKQILMENAELKKV.QQMKKE.ISLLSPQKQKPRERADDSTGTVI.D.E.DAGEL.REST..LS
RetrocopyNSLEYCQKQILMENAELKKVFQQMKKEIISLLSPQKQKPRERADDSTGTVIPDTE-DAGELNRESTFHLS
ParentalCETVREQLTNSIRKQWRILKSHVEKLDNQVSKVHLEGFNDEDVISRQDHEQETEKLELEIQQCKEMIKTQ
C.TVREQLTNSIRKQ.RILKSHVEKLDNQVSKVHLEGFNDEDVISRQDHEQETEKLELEIQQ.KE.IKT.
RetrocopyCATVREQLTNSIRKQ*RILKSHVEKLDNQVSKVHLEGFNDEDVISRQDHEQETEKLELEIQQRKEIIKTR
ParentalQQLLQQQLAT-CDDDTTSLLRDCYLLEEKERLKEEWSLFKEQKKNFEKERRSFTEAAIRLGLERKAFEEE
QQLLQQQLAT.CDDDTTSLL.DCYLLEEKERLKEE.SLFKEQKKNFEKER.SFTEAAIRLGLERKAFEEE
RetrocopyQQLLQQQLATACDDDTTSLLQDCYLLEEKERLKEERSLFKEQKKNFEKERLSFTEAAIRLGLERKAFEEE
ParentalRASWLKQQFLNMTTFDHQNSENVKLFSAFSGSSDRDNPTVHSRPRQKKPHGAPSGSPVCTSKLTKSLPAS
RASW..QQFLNMTT.DHQ.SENVKLFSAFSGSSD.DNPTVHSRPRQKKPHG.P.GSP...SKL.KSLPAS
RetrocopyRASWVNQQFLNMTT*DHQSSENVKLFSAFSGSSDWDNPTVHSRPRQKKPHGVPTGSPLSKSKLIKSLPAS
ParentalPSTSDFCQTRSCVSEYSSISVLNTTPEESKPNQVGRECTNQKWSVASRTDSQEACCSGCSSTHADAHIEK
PSTSDFCQTR.CVSE.SSI.VLN.TPEESKP.QVGRECTNQKWSV.SR..S.E.CC.GCSSTHA.AH.EK
RetrocopyPSTSDFCQTRACVSEHSSINVLNITPEESKPYQVGRECTNQKWSVVSRSGSPEVCCNGCSSTHANAHVEK
ParentalDDLP
DDLP
RetrocopyDDLP

                            

                            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_1078 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_1078 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000117155	1 retrocopy	retro_hsap_2822,
Pongo abelii	ENSPPYG00000001201	1 retrocopy	retro_pabe_2206,
Pan troglodytes	ENSPTRG00000000906	1 retrocopy	retro_ptro_1913,
Tarsius syrichta	ENSTSYG00000004276	1 retrocopy	retro_tsyr_526,
Tursiops truncatus	ENSTTRG00000008402	1 retrocopy	retro_ttru_1078 ,

	RetrogeneDB ID:	retro_ttru_1078
Retrocopy location	Organism:	*Dolphin (Tursiops truncatus)*
	Coordinates:	scaffold_102198:131700..132759(+)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	SSX2IP
	Ensembl ID:	ENSTTRG00000008402
	Aliases:	None
	Description:	synovial sarcoma, X breakpoint 2 interacting protein [Source:HGNC Symbol;Acc:16509]

Parental	NDYEYRQKQILMENAELKKVLQQMKKEMISLLSPQKQKPRERADDSTGTVISDIEEDAGELSRESTWDLS
	N..EY.QKQILMENAELKKV.QQMKKE.ISLLSPQKQKPRERADDSTGTVI.D.E.DAGEL.REST..LS
Retrocopy	NSLEYCQKQILMENAELKKVFQQMKKEIISLLSPQKQKPRERADDSTGTVIPDTE-DAGELNRESTFHLS

Parental	CETVREQLTNSIRKQWRILKSHVEKLDNQVSKVHLEGFNDEDVISRQDHEQETEKLELEIQQCKEMIKTQ
	C.TVREQLTNSIRKQ.RILKSHVEKLDNQVSKVHLEGFNDEDVISRQDHEQETEKLELEIQQ.KE.IKT.
Retrocopy	CATVREQLTNSIRKQ*RILKSHVEKLDNQVSKVHLEGFNDEDVISRQDHEQETEKLELEIQQRKEIIKTR

Parental	QQLLQQQLAT-CDDDTTSLLRDCYLLEEKERLKEEWSLFKEQKKNFEKERRSFTEAAIRLGLERKAFEEE
	QQLLQQQLAT.CDDDTTSLL.DCYLLEEKERLKEE.SLFKEQKKNFEKER.SFTEAAIRLGLERKAFEEE
Retrocopy	QQLLQQQLATACDDDTTSLLQDCYLLEEKERLKEERSLFKEQKKNFEKERLSFTEAAIRLGLERKAFEEE

Parental	RASWLKQQFLNMTTFDHQNSENVKLFSAFSGSSDRDNPTVHSRPRQKKPHGAPSGSPVCTSKLTKSLPAS
	RASW..QQFLNMTT.DHQ.SENVKLFSAFSGSSD.DNPTVHSRPRQKKPHG.P.GSP...SKL.KSLPAS
Retrocopy	RASWVNQQFLNMTT*DHQSSENVKLFSAFSGSSDWDNPTVHSRPRQKKPHGVPTGSPLSKSKLIKSLPAS

Parental	PSTSDFCQTRSCVSEYSSISVLNTTPEESKPNQVGRECTNQKWSVASRTDSQEACCSGCSSTHADAHIEK
	PSTSDFCQTR.CVSE.SSI.VLN.TPEESKP.QVGRECTNQKWSV.SR..S.E.CC.GCSSTHA.AH.EK
Retrocopy	PSTSDFCQTRACVSEHSSINVLNITPEESKPYQVGRECTNQKWSVVSRSGSPEVCCNGCSSTHANAHVEK

Parental	DDLP
	DDLP
Retrocopy	DDLP

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

RetrogeneDB ID:

retro_ttru_1078