RetrogeneDB - Retrocopy retro_ocun

	RetrogeneDB ID:	retro_ocun_960
Retrocopy location	Organism:	*Rabbit (Oryctolagus cuniculus)*
	Coordinates:	17:82945576..82945782(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	FKBP1B
	Ensembl ID:	ENSOCUG00000008793
	Aliases:	FKBP1B, FKBP12.6
	Description:	FK506 binding protein 1B, 12.6 kDa (FKBP1B), mRNA [Source:RefSeq mRNA;Acc:NM_001082145]

Retrocopy-Parental alignment summary:

						
>retro_ocun_960
ATCTGCCCCTGAGGTTCGCACACCTTCCAGAAGCGCGGACAGACCTGCAGGGGGCGCTACACCAAGGTGCTCGCAGATGA

AAAGAAATTTGATTCCTCCAGGGACAGAAACAAGACTTTAAGTTGATGCTGGGCAAGCAGGAGGTGATCCGAGGCTGGGA

AGATAGGGTTGGCCAGATGAGTGTGGGCCAGAGAGCGCAGCTGACC

ORF - retro_ocun_960 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	58.57 %
Parental protein coverage:	67.65 %
Number of stop codons detected:	1
Number of frameshifts detected	1

Retrocopy - Parental Gene Alignment:

									ParentalVSPGDGRTFPKKGQTCVVHYTGMLQNGKKFDSSRDRNK-PFKFRIGKQEVIKGFEEGAAQMSLGQRAKLT
		..P....TF.K.GQTC...YT..L...KKFDSSRDRNK..FK...GKQEVI.G.E....QMS.GQRA.LT
RetrocopyICP*GSHTFQKRGQTCRGRYTKVLADEKKFDSSRDRNK<DFKLMLGKQEVIRGWEDRVGQMSVGQRAQLT

							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	3 .20 RPM	20 .59 RPM
SRP017611_kidney	0 .51 RPM	1 .62 RPM
SRP017611_liver	0 .15 RPM	3 .39 RPM

ChIP-Seq - click to see more details

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ocun_960 retrocopy.

TSS - click to see more details

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ocun_960 was not experimentally validated.

Retrocopy orthology:

Retrocopy retro_ocun_960 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:

Parental genes homology involve 2 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000007752	1 retrocopy	retro_ggor_1036,
Oryctolagus cuniculus	ENSOCUG00000008793	6 retrocopies	retro_ocun_1455, retro_ocun_1518, retro_ocun_515, retro_ocun_603, retro_ocun_624, retro_ocun_960 ,

Parental	VSPGDGRTFPKKGQTCVVHYTGMLQNGKKFDSSRDRNK-PFKFRIGKQEVIKGFEEGAAQMSLGQRAKLT
	..P....TF.K.GQTC...YT..L...KKFDSSRDRNK..FK...GKQEVI.G.E....QMS.GQRA.LT
Retrocopy	ICP*GSHTFQKRGQTCRGRYTKVLADEKKFDSSRDRNK<DFKLMLGKQEVIRGWEDRVGQMSVGQRAQLT

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

RetrogeneDB ID:

retro_ocun_960