RetrogeneDB ID: retro_ogar_1951

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873576.1:7066597..7067104(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF5
• Ensembl ID: ENSOGAG00000031466
• Aliases: None
• Description: ring finger protein 5, E3 ubiquitin protein ligase [Source:HGNC Symbol;Acc:10068]

Sequence

>retro_ogar_1951
ATGGCCAAGGCAGCAGTAGAGGAGGTGGCTCCGAAGGTCAAACTGCAAGCAGGGCGGGGCAGGCGCGACCTTCACAGGTA
ATACTGTGTTTGGAGGCTGCTCCGGAAGCTGTGGTGGTGGTCATATGTGGCCACACTCAGTGTCAGCCCGGTCTCCATCA
GTGGCTGGAGACATGGCCACTGCGGCAACAGTGCCCAATGTGTAAAGCTGGGATCAGCAAAGAGAAGGTTGTCCCTCCTT
TTGGACGAGGGAGCCAGAAGTCTAGGATCCCAGATTGAAATCTCCACCCCTCTCCCAGGGCCAGCAACCAGCTCCGGAGA
GCAGGGGGAGATTCCAGCCATTGGGCGACCCTGGGCGCTCTCCCTTCTCATTTGGTGATGGTGCCTTCCCCTTTGCTTTC
TCACCACCATCAACACCTGTGCGTCTTTTGGGCCAGGGTTCAGCTTTCCTCTGTTCCACAAGTGTGGATCTAGATGGGGG
TCACTCAGCCTCCAGCTGGGAGGATTC

Alignment

ORF - retro_ogar_1951 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.11 %
• Parental protein coverage: 95.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  MAAAEEED-GGPEGP-NRERGGAGATFECN-ICLETAREAVVSV-CGHLYCWPCLHQWLETRPERQECPV
          MA.A..E..GG.EG..N...GGAGATF..N..CLE.A.EAVV.V.CGH..C.P.LHQWLET.P.RQ.CP.
Retrocopy MAKAAVEE<GGSEGQ<NCKQGGAGATFTGN>LCLEAAPEAVVVVICGHTQCQPGLHQWLETWPLRQQCPM

Parental  CKAGISREKVVPLYGRGSQKPQ-DPRLKTPPRPQGQRPAPESRGGFQPFGDTGGFHFSFGVGAFPFG-FF
          CKAGIS.EKVVP..GRGSQK...DPRLK.PP..QGQ.PAPESRG.FQP.GD.G...FSFG.GAFPF..F.
Retrocopy CKAGISKEKVVPPFGRGSQKSR<DPRLKSPPLSQGQQPAPESRGRFQPLGDPGRSPFSFGDGAFPFA<FL

Parental  TTVFNTHEPFRRGTGVDLGQGHPASSWQDSLFLFLAIF
          TT..NT...F..G.G......H...S...SL.L.L..F
Retrocopy TTI-NTCASF--GPGFSFPLFHKCGSRWGSLSLQLGGF

Legend:

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

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_1951 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryctolagus cuniculus	ENSOCUG00000016417	1 retrocopy	retro_ocun_1241,
Otolemur garnettii	ENSOGAG00000031466	1 retrocopy	retro_ogar_1951 ,
Oreochromis niloticus	ENSONIG00000013523	1 retrocopy	retro_onil_48,
Ochotona princeps	ENSOPRG00000004366	2 retrocopies	retro_opri_166, retro_opri_667,
Pan troglodytes	ENSPTRG00000018010	1 retrocopy	retro_ptro_2740,
Ictidomys tridecemlineatus	ENSSTOG00000024478	1 retrocopy	retro_itri_480,
Tupaia belangeri	ENSTBEG00000016320	1 retrocopy	retro_tbel_2183,