RetrogeneDB - Retrocopy retro_rnor

	RetrogeneDB ID:	retro_rnor_759
Retrocopy location	Organism:	*Rat (Rattus norvegicus)*
	Coordinates:	10:68219429..68219720(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	ENSRNOG00000011730
	Aliases:	None
	Status:	KNOWN_PSEUDOGENE
Parental gene information	Parental gene summary:
	Parental gene symbol:	Rangrf
	Ensembl ID:	ENSRNOG00000004980
	Aliases:	Rangrf, RGD1563195
	Description:	ran guanine nucleotide release factor [Source:RefSeq peptide;Acc:NP_001099260]

Retrocopy-Parental alignment summary:

						
>retro_rnor_759
TGTCTGTAGAACTTATCCCTGAGAGGCTGCTGTCAAGATGCCTGGTTCCTTTCCGGCAAGCAGCAGGTCGCTAAAGAGAA

CCAACAGGTAGCAAAGGATGTCCCAGTGCGTCAGGCCTTGCTTCGGTTGCCCCAGTATCACACTGACCTTTCGCTCACCC

TCAGTCAGCCCCCGTGTCACAGCAGGCCTCTTGGCCCAGAAAATCTGTCACATCCACCTTGGAGCCTGGGTAACTGTGAA

CAGCTGGTGACTAGTTTGACTCTTCATGATCCCAACCTCTTTGGTCCCCAG

ORF - retro_rnor_759 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	89.69 %
Parental protein coverage:	52.43 %
Number of stop codons detected:	1
Number of frameshifts detected	0

Retrocopy - Parental Gene Alignment:

									ParentalCLENLSLRGCCQDAWFLSGKQQVAKENQQVAKDVTLHQALLRLPQYQTDLLLTFNQPPCHSRPLGPENLS
		CL.NLSLRGCCQDAWFLSGKQQVAKENQQVAKDV...QALLRLPQY.TDL.LT..QPPCHSRPLGPENLS
RetrocopyCL*NLSLRGCCQDAWFLSGKQQVAKENQQVAKDVPVRQALLRLPQYHTDLSLTLSQPPCHSRPLGPENLS
ParentalCPPWSLGNFEQLVTSLTLHDPNLFGPQ
		.PPWSLGN.EQLVTSLTLHDPNLFGPQ
RetrocopyHPPWSLGNCEQLVTSLTLHDPNLFGPQ

							

							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
SRP017611_brain	0 .00 RPM	7 .48 RPM
SRP017611_kidney	0 .00 RPM	24 .49 RPM
SRP017611_liver	0 .00 RPM	3 .90 RPM

ChIP-Seq - click to see more details

Rattus norvegicus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_rnor_759 retrocopy.

TSS - click to see more details

Rattus norvegicus was not studied using FANTOM5 data.

Lab - click to see more details

retro_rnor_759 was not experimentally validated.

Retrocopy orthology:

Retrocopy retro_rnor_759 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:

Parental genes homology involve 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012555	1 retrocopy	retro_chof_14,
Dasypus novemcinctus	ENSDNOG00000018164	1 retrocopy	retro_dnov_2261,
Dipodomys ordii	ENSDORG00000007147	2 retrocopies	retro_dord_325, retro_dord_346,
Macropus eugenii	ENSMEUG00000006399	2 retrocopies	retro_meug_1091, retro_meug_220,
Mus musculus	ENSMUSG00000032892	2 retrocopies	retro_mmus_175, retro_mmus_2983,
Rattus norvegicus	ENSRNOG00000004980	4 retrocopies	retro_rnor_1148, retro_rnor_2982, retro_rnor_2983, retro_rnor_759 ,

Parental	CLENLSLRGCCQDAWFLSGKQQVAKENQQVAKDVTLHQALLRLPQYQTDLLLTFNQPPCHSRPLGPENLS
	CL.NLSLRGCCQDAWFLSGKQQVAKENQQVAKDV...QALLRLPQY.TDL.LT..QPPCHSRPLGPENLS
Retrocopy	CL*NLSLRGCCQDAWFLSGKQQVAKENQQVAKDVPVRQALLRLPQYHTDLSLTLSQPPCHSRPLGPENLS

Parental	CPPWSLGNFEQLVTSLTLHDPNLFGPQ
	.PPWSLGN.EQLVTSLTLHDPNLFGPQ
Retrocopy	HPPWSLGNCEQLVTSLTLHDPNLFGPQ

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

RetrogeneDB ID:

retro_rnor_759