RetrogeneDB ID: retro_ogar_791

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873527.1:33166288..33166905(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000007553
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: GRPEL2
• Ensembl ID: ENSOGAG00000014326
• Aliases: None
• Description: GrpE-like 2, mitochondrial (E. coli) [Source:HGNC Symbol;Acc:21060]

Sequence

>retro_ogar_791
AGTGCAGTGTGGGAGGGCAGGGGGTGGCTACGTCTGTTCAGCACTGCCACCCAGAGAACGGCGGGTGAGGACTGCAGTTC
TGAGGACCCTCCTGATGAGCTTGGGCCCTCTCCTGTTAAACAAGCCTTAAGGATAAAAGCTGTTAAGCTAGAGAAGGAAG
TCCAAGATTTAACTCTGAGATATCAGAGAGCTATAGCTGACTGTGAAAACATAAAGAGGCGAACCCAGAGACGTGTGGAA
GACGCCAAGACATTTGGAATCCAGAGTTTCTGTAAGGACTTGGTAGGAGTGGCAGACACCGTAGAGAAGACTGCAGGATG
CATCTCTAAGGAATCAGAGCTCGGGACCAGAAACTCATTCTGCAAAAGGTCTTCCGAGGGTTGTCACTCTTCGAAGCAAA
GCTGAAAAGTGTGTTTGGCAAGCATGCCCTGGAGAAGCTGATACCCATTGGTGACAGATATGACCCTCCTGAGCAGGAAC
TCATCTGTCATGTGCCAGCTGGTGTCGGGGTGCAGCCTGGTACCATGGCTTTCATAAGGCAGGATGGCTATCAACTTCAT
GGCCGTACTAGTAGACTTGCCCGGGTGGATGTGGCAGTCAAGTTTCAGAGAGGACTT

Alignment

ORF - retro_ogar_791 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.61 %
• Parental protein coverage: 91.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SAAWESRGWLHPFSTATQRTAGEDCSSEDPPDELGPSLAERALRIKAVKLEKEVQDLTVRYQRAIADCEN
          SA.WE.RGWL..FSTATQRTAGEDCSSEDPPDELGPS....ALRIKAVKLEKEVQDLT.RYQRAIADCEN
Retrocopy SAVWEGRGWLRLFSTATQRTAGEDCSSEDPPDELGPSPVKQALRIKAVKLEKEVQDLTLRYQRAIADCEN

Parental  IKRRTQRCVEDAKIFGIQSFCKDLVEVADILEKTTECISKESEPG-DQKLLLEKVFRGLSLLEAKLKSVF
          IKRRTQR.VEDAK.FGIQSFCKDLV.VAD..EKT..CISKESE.G.DQKL.L.KVFRGLSL.EAKLKSVF
Retrocopy IKRRTQRRVEDAKTFGIQSFCKDLVGVADTVEKTAGCISKESELG<DQKLILQKVFRGLSLFEAKLKSVF

Parental  AKHGLEKLTPIGDKYDPHEHELICHVPAGVGVQPGTVALVRQDGYKLHGRTIRLARVEVAVESQRRL
          .KH.LEKL.PIGD.YDP.E.ELICHVPAGVGVQPGT.A..RQDGY.LHGRT.RLARV.VAV..QR.L
Retrocopy GKHALEKLIPIGDRYDPPEQELICHVPAGVGVQPGTMAFIRQDGYQLHGRTSRLARVDVAVKFQRGL

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_791 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 13 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004070	1 retrocopy	retro_chof_1984,
Dipodomys ordii	ENSDORG00000011142	1 retrocopy	retro_dord_353,
Felis catus	ENSFCAG00000003624	1 retrocopy	retro_fcat_618,
Homo sapiens	ENSG00000164284	2 retrocopies	retro_hsap_1284, retro_hsap_4842,
Gorilla gorilla	ENSGGOG00000005410	2 retrocopies	retro_ggor_1008, retro_ggor_3021,
Macaca mulatta	ENSMMUG00000021662	1 retrocopy	retro_mmul_1317,
Nomascus leucogenys	ENSNLEG00000010160	1 retrocopy	retro_nleu_710,
Oryctolagus cuniculus	ENSOCUG00000016138	3 retrocopies	retro_ocun_89, retro_ocun_905, retro_ocun_943,
Otolemur garnettii	ENSOGAG00000014326	1 retrocopy	retro_ogar_791 ,
Otolemur garnettii	ENSOGAG00000032291	1 retrocopy	retro_ogar_1765,
Pongo abelii	ENSPPYG00000015933	2 retrocopies	retro_pabe_1063, retro_pabe_3764,
Pan troglodytes	ENSPTRG00000017396	2 retrocopies	retro_ptro_3226, retro_ptro_877,
Sorex araneus	ENSSARG00000005467	2 retrocopies	retro_sara_320, retro_sara_511,