RetrogeneDB - Retrocopy retro_tsyr

                        
>retro_tsyr_378
GTTTACATAATTGTTAGCATATTGAGCCACTTTGGAACAGTCTATAGGGAATTTTCAAAAACTTTCAAAATTTGATTATG

GAGAACAGCTGCTTATATCACAGAAATGGCAAAATCCCTGTCCTACTGTCATTCAAAGAGAGTCATTCATAGAGGCATAA

GCCAGAGAACCTGTTTCTTGAATCAGCTGAGAGCTGAAGATTGCAGATTTTGGGTGTCAGTACATGCTCCATCTTCAAGG

AGAACCACTCTCTGTGGCACCCTGGACTACCTGCCCCCCGAGATGTATGAATGTTGGACGCATGATGAGAAAGTAGATCT

CTGGCGCCTGGATGTTCTCTGCTATGAGTTTTTAGTTGGGAATCCTCCCTCTGAAGCAAGCATAAACCCAGAAACCTACA

GAAGAATATCACGAATTGAATTCACATTCCCTGACTTTGTCACAGAGGGAGCCAGGACCTCATTTTGAGACTCCTGAAAC

ACACTCCAAGCCAGAGGCTAACACTAAGAGCAGTACCTGAACACCCCTGGATCACAGCCAATTCATCAAAACCATCAAAT

TGCCAAAACAAAGAATCAGCCAGTGAACAGTCT

ORF - retro_tsyr_378 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	78.82 %
Parental protein coverage:	50.13 %
Number of stop codons detected:	1
Number of frameshifts detected:	4

Retrocopy - Parental Gene Alignment:

                                ParentalVYLILEY-APLGTVYRELQKLSKFDQ-RTATYITELANALSYCHSKRVIHRDI-KPENLLLGSAG-ELKI
VY.I.......GTVYRE..K..K....RTA.YITE.A..LSYCHSKRVIHR.I.KPENL.L.SA..ELKI
RetrocopyVYIIVSILSHFGTVYREFSKTFKI*LWRTAAYITEMAKSLSYCHSKRVIHRGI<KPENLFLESAE<ELKI
ParentalADFGW-SVHAPSSRRTTLCGTLDYLPPEMIEGRMHDEKVDLWSLGVLCYEFLVGNPPFEASTNQETYRRI
ADFG..SVHAPSSRRTTLCGTLDYLPPEM.E...HDEKVDLW.L.VLCYEFLVGNPP.EAS.N.ETYRRI
RetrocopyADFGC<SVHAPSSRRTTLCGTLDYLPPEMYECWTHDEKVDLWRLDVLCYEFLVGNPPSEASINPETYRRI
ParentalSRIEFTFPDFVTEGAR-DLISRLLKHTPSQRLTLREVLEHPWITANSSKPSNCQNKESTSKQS
SRIEFTFPDFVTEGAR.DLI.RLLKHTPSQRLTLR.V.EHPWITANSSKPSNCQNKES.S.QS
RetrocopySRIEFTFPDFVTEGAR<DLILRLLKHTPSQRLTLRAVPEHPWITANSSKPSNCQNKESASEQS

                            

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

                        

RNA-Seq - click to see more details

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tarsius syrichta was not studied using ChIP-Seq data.

EST - click to see more details

Tarsius syrichta was not studied using EST data.

TSS - click to see more details

Tarsius syrichta was not studied using FANTOM5 data.

Lab - click to see more details

retro_tsyr_378 was not experimentally validated.

Retrocopy orthology:

Tarsius syrichta 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 18 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000029331	3 retrocopies	retro_cfam_1027, retro_cfam_257, retro_cfam_764,
Choloepus hoffmanni	ENSCHOG00000005976	8 retrocopies	retro_chof_1302, retro_chof_1575, retro_chof_1709, retro_chof_2213, retro_chof_2389, retro_chof_259, retro_chof_565, retro_chof_764,
Cavia porcellus	ENSCPOG00000006633	1 retrocopy	retro_cpor_106,
Felis catus	ENSFCAG00000024493	1 retrocopy	retro_fcat_495,
Homo sapiens	ENSG00000087586	1 retrocopy	retro_hsap_510,
Gorilla gorilla	ENSGGOG00000007197	1 retrocopy	retro_ggor_470,
Myotis lucifugus	ENSMLUG00000007925	1 retrocopy	retro_mluc_1931,
Macaca mulatta	ENSMMUG00000000070	1 retrocopy	retro_mmul_431,
Mus musculus	ENSMUSG00000027496	1 retrocopy	retro_mmus_2825,
Nomascus leucogenys	ENSNLEG00000007029	1 retrocopy	retro_nleu_1553,
Otolemur garnettii	ENSOGAG00000004441	3 retrocopies	retro_ogar_2805, retro_ogar_3440, retro_ogar_980,
Pongo abelii	ENSPPYG00000011148	1 retrocopy	retro_pabe_231,
Pan troglodytes	ENSPTRG00000013646	1 retrocopy	retro_ptro_381,
Rattus norvegicus	ENSRNOG00000004479	2 retrocopies	retro_rnor_664, retro_rnor_670,
Sus scrofa	ENSSSCG00000007493	1 retrocopy	retro_sscr_936,
Ictidomys tridecemlineatus	ENSSTOG00000011958	2 retrocopies	retro_itri_366, retro_itri_772,
Tupaia belangeri	ENSTBEG00000013284	2 retrocopies	retro_tbel_1137, retro_tbel_2604,
Tarsius syrichta	ENSTSYG00000009221	1 retrocopy	retro_tsyr_378 ,

	RetrogeneDB ID:	retro_tsyr_378
Retrocopy location	Organism:	*Tarsier (Tarsius syrichta)*
	Coordinates:	scaffold_106191:5834..6427(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	AURKA
	Ensembl ID:	ENSTSYG00000009221
	Aliases:	None
	Description:	aurora kinase A [Source:HGNC Symbol;Acc:11393]

Parental	VYLILEY-APLGTVYRELQKLSKFDQ-RTATYITELANALSYCHSKRVIHRDI-KPENLLLGSAG-ELKI
	VY.I.......GTVYRE..K..K....RTA.YITE.A..LSYCHSKRVIHR.I.KPENL.L.SA..ELKI
Retrocopy	VYIIVSILSHFGTVYREFSKTFKI*LWRTAAYITEMAKSLSYCHSKRVIHRGI<KPENLFLESAE<ELKI

Parental	ADFGW-SVHAPSSRRTTLCGTLDYLPPEMIEGRMHDEKVDLWSLGVLCYEFLVGNPPFEASTNQETYRRI
	ADFG..SVHAPSSRRTTLCGTLDYLPPEM.E...HDEKVDLW.L.VLCYEFLVGNPP.EAS.N.ETYRRI
Retrocopy	ADFGC<SVHAPSSRRTTLCGTLDYLPPEMYECWTHDEKVDLWRLDVLCYEFLVGNPPSEASINPETYRRI

Parental	SRIEFTFPDFVTEGAR-DLISRLLKHTPSQRLTLREVLEHPWITANSSKPSNCQNKESTSKQS
	SRIEFTFPDFVTEGAR.DLI.RLLKHTPSQRLTLR.V.EHPWITANSSKPSNCQNKES.S.QS
Retrocopy	SRIEFTFPDFVTEGAR<DLILRLLKHTPSQRLTLRAVPEHPWITANSSKPSNCQNKESASEQS

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

RetrogeneDB ID:

retro_tsyr_378