RetrogeneDB - Retrocopy retro_ggor

                        
>retro_ggor_2495
GAGAACGCTGCCCCCTCGGACCTAGAAAGTATCTTCAAGGACGCCAAGATCCCCGTGTCGGGACCCTTCCTGGTGAAGAT

TGGCTACGCGTTCGTGGACTGCCCAGACGAGATCTGGGCCCTCAAGGCCATTGAGGCGCTTTCAGGTAAAATAGAACTGC

ACGGGAAACCCATAGAAGTTGAGCACTCGGTCCCAAAAAGGCAAAGGATTCGGAAACTTCCGATACGAAATATCCCTCCT

CACTTAACAGTGGGAGGTGCTGGATAGTTGACTAGTCCAGTATGGAGTGGTGGAGAGCTGTCAGCAAGTGAACACTGACT

CGGAAACTGCAGTTGTAAATATAACCTATTCCAGTAAGGACCAAGCTAGACAAGCACTACACAAACTGAATGGATTTCAG

TTAGAGAATTTCACCTTGAAAGTAGCCTATATCCCTGATGATATGGCCACCCAGCAAAACCCCTTTCTGCAGCCCCGAGG

TCGCCGGGGTCTTGGGCAGAGAGGCTCCTCAAGGCAGGGGTCTCCAGGATCCGTGTCCAAGCAGAAACCATGTGATTTGC

CTCTGCGCCTGCTGGTTCCCACCCAATTTGTTGGAGCCATTATAGGAAAAGAAGGTGCCACCATTCGGAACATCACCAAA

CAGACCCAGTCTAAAATCGATGTCCCCCGTAAAGAAAATGCAGGGGCTGCTGAAAAGTCGATTACTATCCTCTCTACTCC

TGAAGGCACCTCTGCGGCTTGTAAGTCTATTCTGGAGATTATGCGTAAGTAAACTCAAGATATAAAATTCACAGAAGAGA

TCCCCTTGAAGATTTTAGCTCAAAATAACTTTGTTGGCCATCTTATTGGTAAAGAAGGAAGAAATCTTAAAAAAATTGAG

CAAGACACAGACACTAAAATCACGATATCTCCATTGCAGGAACTGATGCTGTATGATCCAGAACACACCATTACAGCTAA

AGGCAATGTTGAGACATGTGCCAAAGCTGAGGAAGAGATCATGAAGAAAATCAGGGAGTGTTAGGAAAATGATATCACTT

CTATG

ORF - retro_ggor_2495 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	68.18 %
Parental protein coverage:	60.21 %
Number of stop codons detected:	3
Number of frameshifts detected:	1

Retrocopy - Parental Gene Alignment:

                                ParentalQNXTPADLEKVFAEHKISYSGQFLVKSGYAFVDCPDEHWAMKAIETFSGKVELQGKRLEIEHSVPKKQRS
.N..P.DLE..F...KI..SG.FLVK.GYAFVDCPDE.WA.KAIE..SGK.EL.GK..E.EHSVPK.QR.
RetrocopyENAAPSDLESIFKDAKIPVSGPFLVKIGYAFVDCPDEIWALKAIEALSGKIELHGKPIEVEHSVPKRQRI
ParentalRKIQIRNIPPQL-RWEVLDSLLAQYGTVENCEQVNTESETAVVNVTYSNREQTRQAIMKLNGHQLENHAL
RK..IRNIPP.L..WEVLDS.L.QYG.VE.C.QVNT.SETAVVN.TYS...Q.RQA..KLNG.QLEN..L
RetrocopyRKLPIRNIPPHL>QWEVLDS*LVQYGVVESCQQVNTDSETAVVNITYSSKDQARQALHKLNGFQLENFTL
ParentalKVSYIPDEQIA-QGPENGRRG--GFGSRGQPRQGSPVAAGAPAKQQQVDIPLRLLVPTQYVGAIIGKEGA
KV.YIPD.....Q.P....RG..G.G.RG..RQGSP...G...KQ...D.PLRLLVPTQ.VGAIIGKEGA
RetrocopyKVAYIPDDMATQQNPFLQPRGRRGLGQRGSSRQGSP---GSVSKQKPCDLPLRLLVPTQFVGAIIGKEGA
ParentalTIRNITKQTQSKIDVHRKENAGAAEKAISVHSTPEGCSSACKMILEIMHKEAKDTKTADEVPLKILAHNN
TIRNITKQTQSKIDV.RKENAGAAEK.I...STPEG.S.ACK.ILEIM.K...D.K...E.PLKILA.NN
RetrocopyTIRNITKQTQSKIDVPRKENAGAAEKSITILSTPEGTSAACKSILEIMRK*TQDIKFTEEIPLKILAQNN
ParentalFVGRLIGKEGRNLKKVEQDTETKITISSLQDLTLYNPERTITVKGAIENCCRAEQEIMKKVREAYENDVA
FVG.LIGKEGRNLKK.EQDT.TKITIS.LQ.L.LY.PE.TIT.KG..E.C..AE.EIMKK.RE..END..
RetrocopyFVGHLIGKEGRNLKKIEQDTDTKITISPLQELMLYDPEHTITAKGNVETCAKAEEEIMKKIREC*ENDIT
ParentalAM
.M
RetrocopySM

                            

                            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	0 .00 RPM	0 .00 RPM
SRP007412_cerebellum	0 .08 RPM	0 .04 RPM
SRP007412_heart	0 .00 RPM	0 .06 RPM
SRP007412_kidney	0 .00 RPM	2 .45 RPM
SRP007412_liver	0 .00 RPM	0 .13 RPM
SRP007412_testis	0 .00 RPM	23 .21 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_2495 was not experimentally validated.

Retrocopy orthology:

Retrocopy retro_ggor_2495 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3690
Pongo abelii	retro_pabe_3023

Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000008872	1 retrocopy	retro_ggor_2495 ,
Gorilla gorilla	ENSGGOG00000010286	1 retrocopy	retro_ggor_2520,
Gorilla gorilla	ENSGGOG00000015035	2 retrocopies	retro_ggor_2679, retro_ggor_2748,
Myotis lucifugus	ENSMLUG00000016891	1 retrocopy	retro_mluc_1355,

	RetrogeneDB ID:	retro_ggor_2495
Retrocopy location	Organism:	*Gorilla (Gorilla gorilla)*
	Coordinates:	6:168049914..168050959(-)
	Located in intron of:	ENSGGOG00000004934
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	IGF2BP1
	Ensembl ID:	ENSGGOG00000008872
	Aliases:	None
	Description:	None

Parental	QNXTPADLEKVFAEHKISYSGQFLVKSGYAFVDCPDEHWAMKAIETFSGKVELQGKRLEIEHSVPKKQRS
	.N..P.DLE..F...KI..SG.FLVK.GYAFVDCPDE.WA.KAIE..SGK.EL.GK..E.EHSVPK.QR.
Retrocopy	ENAAPSDLESIFKDAKIPVSGPFLVKIGYAFVDCPDEIWALKAIEALSGKIELHGKPIEVEHSVPKRQRI

Parental	RKIQIRNIPPQL-RWEVLDSLLAQYGTVENCEQVNTESETAVVNVTYSNREQTRQAIMKLNGHQLENHAL
	RK..IRNIPP.L..WEVLDS.L.QYG.VE.C.QVNT.SETAVVN.TYS...Q.RQA..KLNG.QLEN..L
Retrocopy	RKLPIRNIPPHL>QWEVLDS*LVQYGVVESCQQVNTDSETAVVNITYSSKDQARQALHKLNGFQLENFTL

Parental	KVSYIPDEQIA-QGPENGRRG--GFGSRGQPRQGSPVAAGAPAKQQQVDIPLRLLVPTQYVGAIIGKEGA
	KV.YIPD.....Q.P....RG..G.G.RG..RQGSP...G...KQ...D.PLRLLVPTQ.VGAIIGKEGA
Retrocopy	KVAYIPDDMATQQNPFLQPRGRRGLGQRGSSRQGSP---GSVSKQKPCDLPLRLLVPTQFVGAIIGKEGA

Parental	TIRNITKQTQSKIDVHRKENAGAAEKAISVHSTPEGCSSACKMILEIMHKEAKDTKTADEVPLKILAHNN
	TIRNITKQTQSKIDV.RKENAGAAEK.I...STPEG.S.ACK.ILEIM.K...D.K...E.PLKILA.NN
Retrocopy	TIRNITKQTQSKIDVPRKENAGAAEKSITILSTPEGTSAACKSILEIMRK*TQDIKFTEEIPLKILAQNN

Parental	FVGRLIGKEGRNLKKVEQDTETKITISSLQDLTLYNPERTITVKGAIENCCRAEQEIMKKVREAYENDVA
	FVG.LIGKEGRNLKK.EQDT.TKITIS.LQ.L.LY.PE.TIT.KG..E.C..AE.EIMKK.RE..END..
Retrocopy	FVGHLIGKEGRNLKKIEQDTDTKITISPLQELMLYDPEHTITAKGNVETCAKAEEEIMKKIREC*ENDIT

Parental	AM
	.M
Retrocopy	SM

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

RetrogeneDB ID:

retro_ggor_2495