RetrogeneDB ID: retro_ocun_1876

Retrocopy location

• Organism: Rabbit (Oryctolagus cuniculus)
• Coordinates: X:13364252..13364648(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAIM
• Ensembl ID: ENSOCUG00000009724
• Aliases: None
• Description: Fas apoptotic inhibitory molecule [Source:HGNC Symbol;Acc:18703]

Sequence

>retro_ocun_1876
CCTCCTTATAGTCTGGAAAAAAATAACAGATCATGTAGCCATTTGGAATGTTGCTTCCGGTGACTGAGTCCACAAGATTG
AATTTGAACATGACACCACATCAGGAAAATGAGTAGCCTATGTAGGTGGGAAGGAAGAGATAAGAATGGATGTTCATATT
AGTGGGCAAAGAAACTTTCTGTGTTGGAACTGCAAAGATGAAAGCAACCATAAATACAGATGCTGTCAGTGGCTTTGCTT
ATGAATATACTTTGGAAATTAATAGGAAAAGTCTCCAGAAATATATAGAGAACAGATCAAAAGCCACCAACACTTGGATT
TTATACTTGGATAGTGAGGACTTTAGAGTTGTTTTGGAAAAAGGCAACTATACATGTATGGTGCAATGGTAAAAAA

Alignment

ORF - retro_ocun_1876 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.12 %
• Parental protein coverage: 66.17 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  PPSSLEK-MTDLVAVWDVALSDGIHKIEFEHGTTSGKRVVYVDGKEEIRKEWMFKLVGKETF-CVGAAKT
          PP.SLEK..TD.VA.W.VA..D..HKIEFEH.TTSGK.V.YV.GKEEIR........G...F.CVG.AK.
Retrocopy PPYSLEK>ITDHVAIWNVASGD*VHKIEFEHDTTSGK*VAYVGGKEEIRMD--VHISGQRNF>CVGTAKM

Parental  KATINIDAVSGFAYEYTLEINGKSLKKYMENRSKTTHTWVLHLDGEDCRVVLEKD-TMDVWCNGKK
          KATIN.DAVSGFAYEYTLEIN.KSL.KY.ENRSK.T.TW.L.LD.ED.RVVLEK..T..VWCNGKK
Retrocopy KATINTDAVSGFAYEYTLEINRKSLQKYIENRSKATNTWILYLDSEDFRVVLEKG>TIHVWCNGKK

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	17.05 RPM
SRP017611_kidney	0.00 RPM	13.78 RPM
SRP017611_liver	0.00 RPM	1.00 RPM

ChIP-Seq

Oryctolagus cuniculus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ocun_1876 retrocopy.

TSS

Oryctolagus cuniculus was not studied using FANTOM5 data.

Lab

retro_ocun_1876 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ocun_1876 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	ENSOCUG00000009724	1 retrocopy	retro_ocun_1876 ,