RetrogeneDB - Retrocopy retro_ggor

                        
>retro_ggor_1595
ACTAAAGGTGCTTATTCCCTCTCTATTCGTGATTGGGATGAGGTAAGGGGTGACAATGTGAAACACCACAAAATTAGGAA

ACTTGACAATGGTAGATACTATATCACAACCAGAGAACAATTTGATACTCTGCAGAAATTGGCAAAACACTACACAGAAC

ATGCTGATGGTTTATGCTACAAGTTAATAACTATGTGTCCAACTGTGAAACCTCAGATTCAAGGTCTAGCAAAAGATGCT

TGGGAAATCCCTTGATAATCTTTGCGACTAGAGGTTAAACTAGGACAAGGATGTTTTGGCAAAGTGTGGATGGGAATATG

GAATGGAACCACAAAAGTAGCAATCAAAACACTAAAACCAGGTACAATGATGCCAGAAGCTTTTCTTCAAGAAGCTCAGG

TAATGAAAAAAATAAGACATGGTAAACTTGTTCCACTATATGCTGTTGTTTCTGAAGAGCCAATTTACATTGTCACTGAA

TTGATGTCAAAAGGAAGCTTATTCAATTTCCTTAAGGAAGGAGATGGAAAGTATTTGAAGCTTCCACAAATGGTTGATAT

GGCTGCTCAGATTGCTGATGGTATGGCATATATTGAAAGAATGAACTATATTCACCGAGATCTCTGGGCTGCTAATATTC

TTGTAGGAGAAAATCTTCTGTGCAAAATAGCAGATTTTGGTTTAGCAAGGTTAATTGAAGACAATGAATACACATCAAGA

CAAGGTGCAGAATTTCCAATCAAATGGACAGCTCCTGAAGTTGCACTGTATGGTGGGTTTACAATAAAGTCTGATGTCTG

CTCATTTGGAATTCTACAGACAGAACTGGTGACAAAGGGCAGAGTGCCATATCCAGGTATGGTGAACCATGAAGTACTGG

AACAGGTGGAGCGAGGATACAGGATGCCTTGCCCTCAGGGCTGTCCAGAATCCCTCCATGAATTGATGAATCTGTGTTGG

AAGAAGGACCCTGATGAAAGACCAACATTTGAATATATTCAGTCCTTCTTGGGAGACTACTTCACTGCTACAGAGCCATA

GTACCAGCCAGGAGAAAAC

ORF - retro_ggor_1595 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	76.4 %
Parental protein coverage:	66.17 %
Number of stop codons detected:	3
Number of frameshifts detected:	0

Retrocopy - Parental Gene Alignment:

                                ParentalTKGAYSLSIRDWDDMKGDHVKHYKIRKLDNGGYYITTRAQFETLQQLVQHYSERAAGLCCRLVVPCHKGM
TKGAYSLSIRDWD...GD.VKH.KIRKLDNG.YYITTR.QF.TLQ.L..HY.E.A.GLC..L...C....
RetrocopyTKGAYSLSIRDWDEVRGDNVKHHKIRKLDNGRYYITTREQFDTLQKLAKHYTEHADGLCYKLITMCPTVK
ParentalPRLTDLSVKTKDVWEIPRESLQLIKRLGNGQFGEVWMGTWNGNTKVAIKTLKPGTMSPESFLEEAQIMKK
P....L....KD.WEIP..SL.L...LG.G.FG.VWMG.WNG.TKVAIKTLKPGTM.PE.FL.EAQ.MKK
RetrocopyPQIQGLA---KDAWEIP**SLRLEVKLGQGCFGKVWMGIWNGTTKVAIKTLKPGTMMPEAFLQEAQVMKK
ParentalLKHDKLVQLYAVVSEEPIYIVTEYMNKGSLLDFLKDGEGRALKLPNLVDMAAQVAAGMAYIERMNYIHRD
..H.KLV.LYAVVSEEPIYIVTE.M.KGSL..FLK.G.G..LKLP..VDMAAQ.A.GMAYIERMNYIHRD
RetrocopyIRHGKLVPLYAVVSEEPIYIVTELMSKGSLFNFLKEGDGKYLKLPQMVDMAAQIADGMAYIERMNYIHRD
ParentalLRSANILVGNGLICKIADFGLARLIEDNEYTARQGAKFPIKWTAPEAALYGRFTIKSDVWSFGILLTELV
L..ANILVG..L.CKIADFGLARLIEDNEYT.RQGA.FPIKWTAPE.ALYG.FTIKSDV.SFGIL.TELV
RetrocopyLWAANILVGENLLCKIADFGLARLIEDNEYTSRQGAEFPIKWTAPEVALYGGFTIKSDVCSFGILQTELV
ParentalTKGRVPYPGMNNREVLEQVERGYRMPCPQDCPISLHELMIHCWKKDPEERPTFEYLQSFLEDYFTATEPQ
TKGRVPYPGM.N.EVLEQVERGYRMPCPQ.CP.SLHELM..CWKKDP.ERPTFEY.QSFL.DYFTATEP.
RetrocopyTKGRVPYPGMVNHEVLEQVERGYRMPCPQGCPESLHELMNLCWKKDPDERPTFEYIQSFLGDYFTATEP*
ParentalYQPGEN
YQPGEN
RetrocopyYQPGEN

                            

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

                        

RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain_prefrontal_cortex	1 .63 RPM	112 .88 RPM
SRP007412_cerebellum	2 .09 RPM	77 .54 RPM
SRP007412_heart	0 .72 RPM	15 .17 RPM
SRP007412_kidney	7 .36 RPM	19 .99 RPM
SRP007412_liver	3 .43 RPM	19 .20 RPM
SRP007412_testis	6 .84 RPM	30 .04 RPM

ChIP-Seq - click to see more details

Gorilla gorilla was not studied using ChIP-Seq data.

EST - click to see more details

Gorilla gorilla was not studied using EST data.

TSS - click to see more details

Gorilla gorilla was not studied using FANTOM5 data.

Lab - click to see more details

retro_ggor_1595 was not experimentally validated.

Retrocopy orthology:

Retrocopy retro_ggor_1595 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:

Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012780	2 retrocopies	retro_chof_1165, retro_chof_763,
Gorilla gorilla	ENSGGOG00000008065	1 retrocopy	retro_ggor_1595 ,

	RetrogeneDB ID:	retro_ggor_1595
Retrocopy location	Organism:	*Gorilla (Gorilla gorilla)*
	Coordinates:	22:9651290..9652349(+)
	Located in intron of:	ENSGGOG00000004757
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	FYN
	Ensembl ID:	ENSGGOG00000008065
	Aliases:	None
	Description:	None

Parental	TKGAYSLSIRDWDDMKGDHVKHYKIRKLDNGGYYITTRAQFETLQQLVQHYSERAAGLCCRLVVPCHKGM
	TKGAYSLSIRDWD...GD.VKH.KIRKLDNG.YYITTR.QF.TLQ.L..HY.E.A.GLC..L...C....
Retrocopy	TKGAYSLSIRDWDEVRGDNVKHHKIRKLDNGRYYITTREQFDTLQKLAKHYTEHADGLCYKLITMCPTVK

Parental	PRLTDLSVKTKDVWEIPRESLQLIKRLGNGQFGEVWMGTWNGNTKVAIKTLKPGTMSPESFLEEAQIMKK
	P....L....KD.WEIP..SL.L...LG.G.FG.VWMG.WNG.TKVAIKTLKPGTM.PE.FL.EAQ.MKK
Retrocopy	PQIQGLA---KDAWEIP**SLRLEVKLGQGCFGKVWMGIWNGTTKVAIKTLKPGTMMPEAFLQEAQVMKK

Parental	LKHDKLVQLYAVVSEEPIYIVTEYMNKGSLLDFLKDGEGRALKLPNLVDMAAQVAAGMAYIERMNYIHRD
	..H.KLV.LYAVVSEEPIYIVTE.M.KGSL..FLK.G.G..LKLP..VDMAAQ.A.GMAYIERMNYIHRD
Retrocopy	IRHGKLVPLYAVVSEEPIYIVTELMSKGSLFNFLKEGDGKYLKLPQMVDMAAQIADGMAYIERMNYIHRD

Parental	LRSANILVGNGLICKIADFGLARLIEDNEYTARQGAKFPIKWTAPEAALYGRFTIKSDVWSFGILLTELV
	L..ANILVG..L.CKIADFGLARLIEDNEYT.RQGA.FPIKWTAPE.ALYG.FTIKSDV.SFGIL.TELV
Retrocopy	LWAANILVGENLLCKIADFGLARLIEDNEYTSRQGAEFPIKWTAPEVALYGGFTIKSDVCSFGILQTELV

Parental	TKGRVPYPGMNNREVLEQVERGYRMPCPQDCPISLHELMIHCWKKDPEERPTFEYLQSFLEDYFTATEPQ
	TKGRVPYPGM.N.EVLEQVERGYRMPCPQ.CP.SLHELM..CWKKDP.ERPTFEY.QSFL.DYFTATEP.
Retrocopy	TKGRVPYPGMVNHEVLEQVERGYRMPCPQGCPESLHELMNLCWKKDPDERPTFEYIQSFLGDYFTATEP*

Parental	YQPGEN
	YQPGEN
Retrocopy	YQPGEN

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

RetrogeneDB ID:

retro_ggor_1595