RetrogeneDB ID: retro_ogar_2550

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873633.1:6891375..6891994(-)
• Located in intron of: ENSOGAG00000013327

Retrocopy information

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

Parental gene information

• Parental gene symbol: GID8
• Ensembl ID: ENSOGAG00000013834
• Aliases: None
• Description: GID complex subunit 8 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:15857]

Sequence

>retro_ogar_2550
AACTTACATGTCTAGCACGCAGATATGAATTGTCTCTTCATGAACTACCTGGTCACAGAAGGTTTTAAGGAAGCTGCAGA
GAAGTTTCTTACGGAATCTGGGATTGAACCCAGCATGTATCTAGAAACACTTGACGAGAGAATCAAGATCCAGGAGATGA
TACCGAGAGGTCAGATCCAAGAGACCATTGTGCTGATCAGCAGCCTCCACCCAGAGATCTTGGACACAAACCGGTACCTT
TACTTCCATTTGCAGCAACAGCATTTGAATGAGCTGATCTGCCAGCGTGAGACAGAGGCAGCCCCCCGAGTTTTCACAGA
CACAGCTGGCAGAGCATGACGAAGAGAACAGGGAGTGCCTGACAGAGATAGAACACACTCTGGCCCTGCTGGCCTTTGAC
AGCCCTGAGGAGTTGCCCTTCAGAGACCTCCTCCACACGATGCAGAGGCAGAAGATGTGGAGTGAAGTTAATAAAACTGT
CCTAGATTATGAAAATCGAGAGTCAACACCCAAGCTGGCAAAATTACTAAAACTACTTTGGGCTCAGAATGAGGTGGACC
AGAAGAAAGTAAAATATTCCAAAATGACAGACCTCAGCAAGAGTGTGATCGAGGAGCCC

Alignment

ORF - retro_ogar_2550 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.17 %
• Parental protein coverage: 90.79 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NLHVQRADMNRLIMNYLVTEGFKEAAEKFRMESGIEPSVDLETLDERIKIREMILKGQIQEAIALINSLH
          NLHV..ADMN.L.MNYLVTEGFKEAAEKF..ESGIEPS..LETLDERIKI.EMI..GQIQE.I.LI.SLH
Retrocopy NLHV*HADMNCLFMNYLVTEGFKEAAEKFLTESGIEPSMYLETLDERIKIQEMIPRGQIQETIVLISSLH

Parental  PELLDTNRYLYFHLQQQHLIELIRQRETEAA-LEFAQTQLAEQGEESRECLTEMERTLALLAFDSPEESP
          PE.LDTNRYLYFHLQQQHL.ELI.QRETEAA..EF.QTQLAE..EE.RECLTE.E.TLALLAFDSPEE.P
Retrocopy PEILDTNRYLYFHLQQQHLNELICQRETEAA>PEFSQTQLAEHDEENRECLTEIEHTLALLAFDSPEELP

Parental  FGDLLHMMQRQKVWSEVNQAVLDYENRESTPKLAKLLKLLLWAQNELDQKKVKYPKMTDLSKGVIEEP
          F.DLLH.MQRQK.WSEVN..VLDYENRESTPKLAKLLK.LLWAQNE.DQKKVKY.KMTDLSK.VIEEP
Retrocopy FRDLLHTMQRQKMWSEVNKTVLDYENRESTPKLAKLLK-LLWAQNEVDQKKVKYSKMTDLSKSVIEEP

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_2550 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 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000012749	1 retrocopy	retro_cfam_1551,
Myotis lucifugus	ENSMLUG00000016381	2 retrocopies	retro_mluc_417, retro_mluc_418,
Monodelphis domestica	ENSMODG00000016835	1 retrocopy	retro_mdom_1208,
Mus musculus	ENSMUSG00000027573	1 retrocopy	retro_mmus_1267,
Otolemur garnettii	ENSOGAG00000013834	1 retrocopy	retro_ogar_2550 ,
Rattus norvegicus	ENSRNOG00000010180	1 retrocopy	retro_rnor_2248,
Sorex araneus	ENSSARG00000013102	2 retrocopies	retro_sara_396, retro_sara_598,