RetrogeneDB ID: retro_ogar_2882

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873675.1:2676530..2677199(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000033546
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000028797
• Aliases: None
• Description: None

Sequence

>retro_ogar_2882
CATCGGCAGCACAAGCTGGTCATTCTGAGCCAGGACAGGTTCTACACGGTCCTGACAGCAGAGCAGAAGGCCAAGGCCTT
GAAGGGACAGTACAATTTTGACTACCCAGATGCTTTAGATAATGATTGGATGCACAGGACTCTGAAAACATCATGGAGGG
TAAAACTGTTGAACTCCCACCTATGACTTTGTGACCCACACAAGGTTACTGGAGAACACAGTGGTCTATCCTGCGGATGT
TGTCCTGTTTGAGGGCATCTTGGTATTCTATAGTCAGGAGCTCCCGGACATGTTCCACATGTGCCTCTTCATGGACACAG
ACTCTGACATCAGGCTGTCCATGGTAGTTCTCTGGGACATGCCCTGGGGGAGGGACCTGGGGCAGATTCTGACCTGGTAC
ACCACCTTTCTCAAACCAGCCTTTGAAGCATTCTGCCTGCTGACAAAGAAGTATGCTGATGTGATCATACCTTGTGGGGT
TGACAACATGGTGGCCATCAACCTGATCATGCAGCACATCCAGGACATCCTGAATGGTGATATGTACAAGTGACACTGAG
GAGGGTCCAATGGGCAGAGTTTCAAGGAGATCTTTCTGACCTAGGAGACCACTCTGGGATGCTGACCTCAGGCAAATGGT
CAAACTTGGAGTCCAGCAGCAGACCCCAC

Alignment

ORF - retro_ogar_2882 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.26 %
• Parental protein coverage: 80.94 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  HRQRKLVILSQDRFYKVLTAEQKAKALKGQYNFDHPDAFDNDLMHRTLK-NIVEGKTVEVP-TYDFVTHS
          HRQ.KLVILSQDRFY.VLTAEQKAKALKGQYNFD.PDA.DND.MHRTLK.NI.EGKTVE.P.TYDFVTH.
Retrocopy HRQHKLVILSQDRFYTVLTAEQKAKALKGQYNFDYPDALDNDWMHRTLK<NIMEGKTVELP<TYDFVTHT

Parental  RLSETTVVYPADVVLFEGILVFYSQEIRDMFHLRLFVDTDSDVRLSRRVLRDVHRGRDLEQILTQYTTFV
          RL.E.TVVYPADVVLFEGILVFYSQE..DMFH..LF.DTDSD.RLS..VL.D...GRDL.QILT.YTTF.
Retrocopy RLLENTVVYPADVVLFEGILVFYSQELPDMFHMCLFMDTDSDIRLSMVVLWDMPWGRDLGQILTWYTTFL

Parental  KPAFEEFCLPTKKYADVIIPRGVDNMAVAINLIVQHIQDILNGDICKWHRGGSNGRSYKRTF-SEPGDHS
          KPAFE.FCL.TKKYADVIIP.GVDNM.VAINLI.QHIQDILNGD..K.H.GGSNG.S.K..F.S..GDHS
Retrocopy KPAFEAFCLLTKKYADVIIPCGVDNM-VAINLIMQHIQDILNGDMYK*H*GGSNGQSFKEIF<SDLGDHS

Parental  GMLTSGKRSHLESSSRPH
          GMLTSGK.S.LESSSRPH
Retrocopy GMLTSGKWSNLESSSRPH

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_2882 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000004903	1 retrocopy	retro_mmur_782,
Mus musculus	ENSMUSG00000002550	2 retrocopies	retro_mmus_2869, retro_mmus_3145,
Otolemur garnettii	ENSOGAG00000028797	1 retrocopy	retro_ogar_2882 ,