RetrogeneDB - Retrocopy retro_mmul

						
>retro_mmul_2361
GGTAAAGTGGAATTGCATGGGAAAATCATGGTTGATTACTCAGTCTCTAAAAAGGTAAGGAACAGGAAAATTCAGATTTG

AAACATACCTCCTCACCTTCGGTGGGAGGTGTTGGATGCACTTTTGGCTCAATACGGGACAGTGGAGAATGTGGAACAAG

TCAACACAGACACAGAAACTGCTGATGTCAACGTCACATATGCAACAAGAGAAGCAGCAAAATAGCCATGAAGAAGCTAA

GTGGGCATCAGATTGAGAACTACTCCTTCAAGATTTCCTATACCCTGGATGAAGAGGTGAGCTCCCCTTCACCCCTTCAG

CGAGCCCAGGGTGGGGACCACTCTTCCCAGAAGCAAGGCCATGCCCTGGAGACTCTTCTCAGGCCAGACAGATTTCCCGC

TGCAGATCCCACCCCCAGTTTTTTGGTGCCATGATTGGAAAGGAGGGCTTGACCATAATGAACATCACTAAGTAGACCCA

GTCCCAGCTAGACATCTACAGAAAAGAGAACTCTGGAGCTGAAGAGAAGCCTGTCACCATTCATGCCACCCCAGAGGGGA

CTTCTGAAGCATGTCACAGCCACACAATTCTTGAAATCATGCAGAAAGAGGCAGATGAGACCAAACCAGCCGAAGAGATT

CCTCTGAAAATCATGGCCCACAATGGGCTGGTTGGAAGACTGATTGCAAAAGAAGGCAGAAATGTGAAGAAAATTGAACA

TGAAACAGGGACCAAGATAACAATCTCCTCCTTGCAGGATTTGAGCATATACAACCCAGAAAGAACCATCACCGTGAAGG

GCACAGTAGAGGCCTGTGCCAGTGCTGAGATAGAGATTATGAAGAAGCTGCGTGAAGCCTTTGAAAATGATATGCTGGCT

GTTAATACCCACTCCGGATACTTCTCCAGCCTGTACCCTCATCACCAGTTTGGCCCATTCCCGCATCATCACTCTCCAAA

GCAGGAGATTGTGAATCTCTTCATCCTAACCCAGGCTGTGGGTACCATCATCGGGAAGAAAGGGGCACACATCAAACAGC

TGCCAAGATTCGCCGGAGCCTCCATCAAG

ORF - retro_mmul_2361 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	85.99 %
Parental protein coverage:	64.75 %
Number of stop codons detected:	2
Number of frameshifts detected	2

Retrocopy - Parental Gene Alignment:

									ParentalGKVELHGKIMEVDYSVSKKLRSRKIQIRNIPPHLQWEVLDGLLAQYGTVENVEQVNTDTETAVVNVTYAT
		GKVELHGKIM.VDYSVSKK.R.RKIQI.NIPPHL.WEVLD.LLAQYGTVENVEQVNTDTETA.VNVTYAT
RetrocopyGKVELHGKIM-VDYSVSKKVRNRKIQI*NIPPHLRWEVLDALLAQYGTVENVEQVNTDTETADVNVTYAT
ParentalREEAK-IAMEKLSGHQFENYSFKISYIPDEEVSSPSPPQRAQRGDHSSREQGHA-PGGTSQARQIDFPLR
		RE.AK.IAM.KLSGHQ.ENYSFKISY..DEEVSSPSP.QRAQ.GDHSS..QGHA.PG..SQARQI....R
RetrocopyREAAK<IAMKKLSGHQIENYSFKISYTLDEEVSSPSPLQRAQGGDHSSQKQGHA<PGDSSQARQIS---R
ParentalILVPTQFVGAIIGKEGLTIKNITKQTQSRVDIHRKENSGAAEKPVTIHATPEGTSEACRM--ILEIMQKE
		.....QF.GA.IGKEGLTI.NITK.TQS..DI.RKENSGA.EKPVTIHATPEGTSEAC....ILEIMQKE
RetrocopyCRSHPQFFGAMIGKEGLTIMNITK*TQSQLDIYRKENSGAEEKPVTIHATPEGTSEACHSHTILEIMQKE
ParentalADETKLAEEIPLKILAHNGLVGRLIGKEGRNLKKIEHETGTKITISSLQDLSIYNPERTITVKGTVEACA
		ADETK.AEEIPLKI.AHNGLVGRLI.KEGRN.KKIEHETGTKITISSLQDLSIYNPERTITVKGTVEACA
RetrocopyADETKPAEEIPLKIMAHNGLVGRLIAKEGRNVKKIEHETGTKITISSLQDLSIYNPERTITVKGTVEACA
ParentalSAEIEIMKKLREAFENDMLAVNTHSGYFSSLYPHHQFGPFPHHHSYPEQEVVNLFIPTQAVGAIIGKKGA
		SAEIEIMKKLREAFENDMLAVNTHSGYFSSLYPHHQFGPFPHHHS.P.QE.VNLFI.TQAVG.IIGKKGA
RetrocopySAEIEIMKKLREAFENDMLAVNTHSGYFSSLYPHHQFGPFPHHHS-PKQEIVNLFILTQAVGTIIGKKGA
ParentalHIKQLARFAGASIK
		HIKQL.RFAGASIK
RetrocopyHIKQLPRFAGASIK

							

							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	0 .00 RPM	0 .34 RPM
SRP007412_brain_prefrontal_cortex	0 .08 RPM	0 .32 RPM
SRP007412_cerebellum	0 .06 RPM	4 .97 RPM
SRP007412_heart	0 .06 RPM	5 .18 RPM
SRP007412_kidney	0 .00 RPM	6 .81 RPM
SRP007412_liver	0 .04 RPM	0 .28 RPM
SRP007412_testis	0 .04 RPM	2 .22 RPM

ChIP-Seq - click to see more details

Macaca mulatta was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmul_2361 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_2361 was not experimentally validated.

Retrocopy orthology:

Retrocopy retro_mmul_2361 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:

Parental genes homology involve 5 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000073792	2 retrocopies	retro_hsap_216, retro_hsap_4096,
Gorilla gorilla	ENSGGOG00000015035	2 retrocopies	retro_ggor_2679, retro_ggor_2748,
Myotis lucifugus	ENSMLUG00000002631	1 retrocopy	retro_mluc_599,
Macaca mulatta	ENSMMUG00000023416	3 retrocopies	retro_mmul_2361 , retro_mmul_409, retro_mmul_530,
Pongo abelii	ENSPPYG00000014373	3 retrocopies	retro_pabe_1723, retro_pabe_281, retro_pabe_837,

	RetrogeneDB ID:	retro_mmul_2361
Retrocopy location	Organism:	*Rhesus macaque (Macaca mulatta)*
	Coordinates:	8:101761551..101762620(-)
	Located in intron of:	ENSMMUG00000022186
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	IGF2BP2
	Ensembl ID:	ENSMMUG00000023416
	Aliases:	None
	Description:	None

Parental	GKVELHGKIMEVDYSVSKKLRSRKIQIRNIPPHLQWEVLDGLLAQYGTVENVEQVNTDTETAVVNVTYAT
	GKVELHGKIM.VDYSVSKK.R.RKIQI.NIPPHL.WEVLD.LLAQYGTVENVEQVNTDTETA.VNVTYAT
Retrocopy	GKVELHGKIM-VDYSVSKKVRNRKIQI*NIPPHLRWEVLDALLAQYGTVENVEQVNTDTETADVNVTYAT

Parental	REEAK-IAMEKLSGHQFENYSFKISYIPDEEVSSPSPPQRAQRGDHSSREQGHA-PGGTSQARQIDFPLR
	RE.AK.IAM.KLSGHQ.ENYSFKISY..DEEVSSPSP.QRAQ.GDHSS..QGHA.PG..SQARQI....R
Retrocopy	REAAK<IAMKKLSGHQIENYSFKISYTLDEEVSSPSPLQRAQGGDHSSQKQGHA<PGDSSQARQIS---R

Parental	ILVPTQFVGAIIGKEGLTIKNITKQTQSRVDIHRKENSGAAEKPVTIHATPEGTSEACRM--ILEIMQKE
	.....QF.GA.IGKEGLTI.NITK.TQS..DI.RKENSGA.EKPVTIHATPEGTSEAC....ILEIMQKE
Retrocopy	CRSHPQFFGAMIGKEGLTIMNITK*TQSQLDIYRKENSGAEEKPVTIHATPEGTSEACHSHTILEIMQKE

Parental	ADETKLAEEIPLKILAHNGLVGRLIGKEGRNLKKIEHETGTKITISSLQDLSIYNPERTITVKGTVEACA
	ADETK.AEEIPLKI.AHNGLVGRLI.KEGRN.KKIEHETGTKITISSLQDLSIYNPERTITVKGTVEACA
Retrocopy	ADETKPAEEIPLKIMAHNGLVGRLIAKEGRNVKKIEHETGTKITISSLQDLSIYNPERTITVKGTVEACA

Parental	SAEIEIMKKLREAFENDMLAVNTHSGYFSSLYPHHQFGPFPHHHSYPEQEVVNLFIPTQAVGAIIGKKGA
	SAEIEIMKKLREAFENDMLAVNTHSGYFSSLYPHHQFGPFPHHHS.P.QE.VNLFI.TQAVG.IIGKKGA
Retrocopy	SAEIEIMKKLREAFENDMLAVNTHSGYFSSLYPHHQFGPFPHHHS-PKQEIVNLFILTQAVGTIIGKKGA

Parental	HIKQLARFAGASIK
	HIKQL.RFAGASIK
Retrocopy	HIKQLPRFAGASIK

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

RetrogeneDB ID:

retro_mmul_2361