RetrogeneDB ID: retro_ocun_1855

Retrocopy location

• Organism: Rabbit (Oryctolagus cuniculus)
• Coordinates: GL019380:52559..52841(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOCUG00000026836
• Aliases: None
• Description: None

Sequence

>retro_ocun_1855
TGCTCTTCAGGGTCCCAGGTCCCCACGGCCTCTCCTCCCCAGGGACTAACAGTCTGTGTTTGTCTCTGTGCAGCCTCACC
TCCCACGTGTTTCTATGACATGGCCTGTTCTGCAATCAACTGCTCACTGTTGCCTACGCCTCTGGGCTTTTATGTCCGGG
TGGCTGCTGGACAAACAGCCTGGTTAGAAAGCAAATGCTGGAATGGAGGACCCTGCAGTAGCATCATCCCTACCCCAGGT
GGGTGCCAGCCCCATGGTCCCCTTGCTGGGCCGTGTCCTGGC

Alignment

ORF - retro_ocun_1855 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.74 %
• Parental protein coverage: 51.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  CSVVSPCPDDTYTSCITSCASWPSASPPTRFQDLACSAINCSLLPTSPGFFVRGAAGQTAWLSSQCCNGE
          CS..S..P........T.C.....ASPPT.F.D.ACSAINCSLLPT..GF.VR.AAGQTAWL.S.C.NG.
Retrocopy CSSGSQVPTASPPQGLTVCVCLCAASPPTCFYDMACSAINCSLLPTPLGFYVRVAAGQTAWLESKCWNGG

Parental  PCNSNIPPPTPDFQTEGTGNTQCPG
          PC.S.IP.P....Q..G.....CPG
Retrocopy PCSSIIPTP-GGCQPHGPLAGPCPG

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP017611_brain	0.00 RPM	0.06 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 RPM

ChIP-Seq

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ocun_1855 retrocopy.

TSS

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab

retro_ocun_1855 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ocun_1855 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Oryctolagus cuniculus	ENSOCUG00000026836	1 retrocopy	retro_ocun_1855 ,