RetrogeneDB ID: retro_ogar_1661

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873559.1:12294762..12295430(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000014463
• Aliases: None
• Description: None

Sequence

>retro_ogar_1661
ATGCCGATGGGGGACTTTGATTCAAAGCTCAGCTAGGCTGACCAGGTAGAGAAGGAGGGAGAGGAGGACAAATGTGTCAC
CAGTGAGCTCCTCCAGGGGCTCCCTCTGGCCACCAGAGACACCAGCCTGGAGCCTGTGCTACTGCCCAGAGCTCCACTGC
CACCTCCCAAGGAGGTCATCAACATCAAAATAAAGACAACGATCCAGTACAAAACAGATAGTGATGGCAAGAAGTTCAAG
ATTGTCAGCACCTTCAGGACTGAGACCCAGAAGGTCTCAAAGGCAGTTGCAAGGAAGAAGAACTGGAAAAAAGTTTGGTA
ACTCAGAGTTTGCCCCCCAAGGACCAATGTGGCCACCACCAGTATTAGTAATGACATCTCCATGATATTCATCACCAGCA
CAGATGACTTGAATTGCCAGGAGGAGGAGGACCCAGTGAACGAGCTCAAGGGCCAGAAGATAGCATAGTGTCCCACCGCA
TCTGCATAGGAGACTGCTGGACCATGCATTGCCTCTACAAGGACACTGTGGGGCCCACGCAGGAGCTGGCCAAGCAGCTA
GGGCTGTCCACTGACAAGAAAGAGAAGCTGCCAGGAGAGCTGGAGCCTGTGCAGGCAGCTCAGGACAAGATAGGGAAATA
CGTGCCACCTTGCCTGCGGGATGGGGCC

Alignment

ORF - retro_ogar_1661 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.45 %
• Parental protein coverage: 69.38 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MPTGDFDSKPSWADQVEEEGEDDKCVTSELLKGLPLATGDTSPEPDLLPGAPLPPPKEVINGNIKTVTEY
          MP.GDFDSK.S.ADQVE.EGE.DKCVTSELL.GLPLAT.DTS.EP.LLP.APLPPPKEVIN..IKT...Y
Retrocopy MPMGDFDSKLS*ADQVEKEGEEDKCVTSELLQGLPLATRDTSLEPVLLPRAPLPPPKEVINIKIKTTIQY

Parental  KIDDDGKKFKIVRTFRIETRKASKAVARRKNWKK-FGNSEFDPPGP-NVATTTVSDDVSMTFITSKEDLN
          K.D.DGKKFKIV.TFR.ET.K.SKAVAR.KNWKK.FGNSEF.P.GP.NVATT..S.D.SM.FITS..DLN
Retrocopy KTDSDGKKFKIVSTFRTETQKVSKAVARKKNWKK>FGNSEFAPQGP<NVATTSISNDISMIFITSTDDLN

Parental  CQEEED-PMNKLKGQK--IVSCRICKGDHWTTRCPYKDTLGPMQKELAEQLGLSTGEKEKLPGELEPVQA
          CQEEED.P.....G....IVS.RIC.GD.WT..C.YKDT.GP.Q.ELA.QLGLST..KEKLPGELEPVQA
Retrocopy CQEEED<PSERAQGPEDSIVSHRICIGDCWTMHCLYKDTVGPTQ-ELAKQLGLSTDKKEKLPGELEPVQA

Parental  AQNKTGKYVPPSLRDGA
          AQ.K.GKYVPP.LRDGA
Retrocopy AQDKIGKYVPPCLRDGA

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_1661 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000021436	1 retrocopy	retro_ecab_713,
Myotis lucifugus	ENSMLUG00000014196	1 retrocopy	retro_mluc_2407,
Otolemur garnettii	ENSOGAG00000014463	3 retrocopies	retro_ogar_101, retro_ogar_1577, retro_ogar_1661 ,
Rattus norvegicus	ENSRNOG00000020619	1 retrocopy	retro_rnor_1731,