RetrogeneDB ID: retro_ogar_2688

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873648.1:964916..965331(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000032698
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000003504
• Aliases: None
• Description: None

Sequence

>retro_ogar_2688
ACCAGGTCAACATGTGAAGCAAGTTGTCGAGTCACCTCCGCAGGTCCAAGACAGGAACATCACAGGGGACATGGTACTAA
TGTCAAAAGGCAGCCAAATGTTCTGCTCCAAAATACAACAACAATTTGATGACTTGAGATCAGGGTCAGTTTAATGAGGA
AACTTTTTCCTTCTAAGATCATTATCCATCTCCCCAAAACTTTGTGTCTGTGGTAAAGACCCTTCTAACATGTCTGTTCA
GGGTTTACGTCCCTATTTATCATCAGCTCTTTGACTGTGTGAGGCAGCTGCACAGGGTGGCTTACCTCCACACCTTTCAG
CATTTGTTTTCCTTGTGCAGGAGTTTAATCCGATTGATAGGTATGCATTGGCACCTCTTCGGGAATCCATTGAGAAACTT
GGATCAAAACACAGG

Alignment

ORF - retro_ogar_2688 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.74 %
• Parental protein coverage: 66.51 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TEFCTEASCPVMSAGPRYEYHWADGTNIK-KPIKCSAPKYIDYLMTWVQDQLDDETLFPSKIGVPFPKNF
          T....EASC.V.SAGPR.E.H...GTN.K.K..KCSAPKY...LMT..Q.Q...ET.F......P.P.NF
Retrocopy TRSTCEASCRVTSAGPRQEHHRGHGTNVK<KAAKCSAPKYNNNLMT*DQGQFNEET-FSF*DHYPSPQNF

Parental  MSVAKTILKRLFRVYAHIYHQHFDSVMQLQEEAHLNTSFKH-FIFFVQEFNLIDRRELAPLQELIEKLGS
          .SV.KT.L..LFRVY..IYHQ.FD.V.QL...A.L.T.F.H.F.F.VQEFN.IDR..LAPL.E.IEKLGS
Retrocopy VSVVKTLLTCLFRVYVPIYHQLFDCVRQLHRVAYLHT-FQH<FVFLVQEFNPIDRYALAPLRESIEKLGS

Parental  KDR
          K.R
Retrocopy KHR

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_2688 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 15 parental genes, and 25 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017359	1 retrocopy	retro_amel_1889,
Canis familiaris	ENSCAFG00000008735	1 retrocopy	retro_cfam_2054,
Choloepus hoffmanni	ENSCHOG00000007277	1 retrocopy	retro_chof_502,
Dasypus novemcinctus	ENSDNOG00000012838	3 retrocopies	retro_dnov_1948, retro_dnov_2226, retro_dnov_337,
Echinops telfairi	ENSETEG00000018245	1 retrocopy	retro_etel_425,
Homo sapiens	ENSG00000114978	2 retrocopies	retro_hsap_1223, retro_hsap_4670,
Gorilla gorilla	ENSGGOG00000010015	1 retrocopy	retro_ggor_954,
Loxodonta africana	ENSLAFG00000014338	2 retrocopies	retro_lafr_223, retro_lafr_285,
Macaca mulatta	ENSMMUG00000015208	2 retrocopies	retro_mmul_1299, retro_mmul_297,
Mustela putorius furo	ENSMPUG00000007824	2 retrocopies	retro_mputfur_754, retro_mputfur_770,
Nomascus leucogenys	ENSNLEG00000000321	2 retrocopies	retro_nleu_2161, retro_nleu_694,
Otolemur garnettii	ENSOGAG00000003504	1 retrocopy	retro_ogar_2688 ,
Pongo abelii	ENSPPYG00000012284	2 retrocopies	retro_pabe_1017, retro_pabe_3629,
Pan troglodytes	ENSPTRG00000012079	2 retrocopies	retro_ptro_3103, retro_ptro_837,
Rattus norvegicus	ENSRNOG00000042657	2 retrocopies	retro_rnor_2544, retro_rnor_2545,