RetrogeneDB ID: retro_ogar_1515

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873550.1:6070940..6071270(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SYNJ2BP
• Ensembl ID: ENSOGAG00000013211
• Aliases: None
• Description: synaptojanin 2 binding protein [Source:HGNC Symbol;Acc:18955]

Sequence

>retro_ogar_1515
TATTTGGTCACTGAGGAAGAGATGAGTTTTAGCTGCATCAAAGAGAATGGGGCTGCGGCCCTGGATGAGCAGCTCCAGGA
GGGTGATATCCTCTGAGTAAATGGCCAAGACCTAAAGAACTTGCTGCACTAGGATGCTATAGACCTCTTTCGCAATGCAG
GCTATGCTGTGTCCCTCAGAGTGCAGCACAGGTTACAGGTGCAGAATGAACCTATAGGACATCAAGGTGAAGGGGACCCA
CGTGGTATTCCCATATTTATGGTGCTAGAGCCAGTGTATGCCCTCAGCACAGTAGCAGCCTGGGCCTTCAAGAGATACCG
GCAAAAACTT

Alignment

ORF - retro_ogar_1515 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.68 %
• Parental protein coverage: 88.8 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YVSNDSGIYVSRIKENGAAALDGRLQEGDKILSVNGQDLRNLLHHDAVNLFRNAGYAVSLRVQHRLQVQN
          Y.........S.IKENGAAALD..LQEGD.IL.VNGQDL.NLLH.DA..LFRNAGYAVSLRVQHRLQVQN
Retrocopy YLVTEEEMSFSCIKENGAAALDEQLQEGD-IL*VNGQDLKNLLH*DAIDLFRNAGYAVSLRVQHRLQVQN

Parental  GPTGHRGEGDPSGIPIFMVLVPVFALTMVAAWAFMRYRQKL
          .P.GH.GEGDP.GIPIFMVL.PV.AL..VAAWAF.RYRQKL
Retrocopy EPIGHQGEGDPRGIPIFMVLEPVYALSTVAAWAFKRYRQKL

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_1515 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000007586	1 retrocopy	retro_btau_1114,
Dipodomys ordii	ENSDORG00000010450	1 retrocopy	retro_dord_443,
Macaca mulatta	ENSMMUG00000011086	1 retrocopy	retro_mmul_2308,
Mus musculus	ENSMUSG00000090935	3 retrocopies	retro_mmus_1428, retro_mmus_1538, retro_mmus_1802,
Otolemur garnettii	ENSOGAG00000013211	1 retrocopy	retro_ogar_1515 ,