RetrogeneDB ID: retro_ogar_2992

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873693.1:746450..747238(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000001879
• Aliases: None
• Description: None

Sequence

>retro_ogar_2992
AACATGGCTAATGCCCTGGCCCGTGCTACTTGTGAACTCTGCAGAGGAGGCTTTGTGCCTGCTAAGAAGATCCTGAACAG
TAACAGAGAGCTATACCATGAGCAGTGTTTTGTGTGTGCTCAGTGCTTCCAGCAGTTCCCAGAAGGACTATTCTATGAGT
CTGAAGGAAGAAAATACTGTGAACATGATTTTCAGTTGCTTTTTGTTCCTTGCTGTCATTAGTGTGGTAAATTCATCATT
GGCTGAGTTACAAAAGCAACGAATAACCATTGCTTTTGCTGTGACCTCTGCCAGGAAATTCTGGCTGATACTGGGTTTGT
CAAGAATGCTGGTAGACACCTGTGTTGCTCTTGTCATAAATTGAGAAAGCCAGAGGCCTTGGAAAGCACATTTGCTGGAA
GTGCCATGCCATTGTTGATGAGCAACCTTTGATATTCAAGAGTGACCCTTACCACTCAGACCATTTCAACTGTGCCAGCT
GCAGGAAGGAGCTGATGTATGACACCTGGCACTTGAAAGGAGAGCTGTGCTGCCTGCTCGACCATGATGAATGGGGTGTC
TCCATCTGTGGCATTTGCTCTTGGCCCATTGAATGGTGTGTGGTCAATCCCATGGGCAAGCAGTGGCATGCAGAAGATTT
TGTTTGTGCCAAGTGTGAAAAACCATTTCTTGGACATTGCCATTATGAGAGGAAGGACCTGGCATATTGTAAAATCCACT
ATAATCAGCTATTTGGTAATGTTTGTCTCCACTGCAACTATGTTATAGAAGGTTATGTGGTCTCTGCT

Alignment

ORF - retro_ogar_2992 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.49 %
• Parental protein coverage: 68.99 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NMANALASATCERCKGGFAPAEKIVNSNGELYHEQCFVCAQCFQQFPDGLFYEFEGRKYCEHDFQMLFAP
          NMANALA.ATCE.C.GGF.PA.KI.NSN.ELYHEQCFVCAQCFQQFP.GLFYE.EGRKYCEHDFQ.LF.P
Retrocopy NMANALARATCELCRGGFVPAKKILNSNRELYHEQCFVCAQCFQQFPEGLFYESEGRKYCEHDFQLLFVP

Parental  CCHQCGEFIIGRVIKAMNNSWHPECFRCDLCQEVLADIGFVKNAGRHLCRPCHNR-EKARGLGKYICQKC
          CCH.CG.FIIG.V.KA.NN.....CF.CDLCQE.LAD.GFVKNAGRHLC..CH...EKARGLGK.IC.KC
Retrocopy CCH*CGKFIIG*VTKATNN----HCFCCDLCQEILADTGFVKNAGRHLCCSCHKL<EKARGLGKHICWKC

Parental  HAIIDEQPLIFKNDPYHPDHFNCANCGKELTADARELKGELYCLPCHDKMGVPICGACRRPIEGRVVNAM
          HAI.DEQPLIFK.DPYH.DHFNCA.C.KEL..D...LKGEL.CL..HD..GV.ICG.C..PIE..VVN.M
Retrocopy HAIVDEQPLIFKSDPYHSDHFNCASCRKELMYDTWHLKGELCCLLDHDEWGVSICGICSWPIEWCVVNPM

Parental  GKQWHVEHFVCAKCEKPFLGHRHYERKGLAYCETHYNQLFGDVCFHCNRVIEGDVVSA
          GKQWH.E.FVCAKCEKPFLGH.HYERK.LAYC..HYNQLFG.VC.HCN.VIEG.VVSA
Retrocopy GKQWHAEDFVCAKCEKPFLGHCHYERKDLAYCKIHYNQLFGNVCLHCNYVIEGYVVSA

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_2992 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000013902	1 retrocopy	retro_chof_817,
Dasypus novemcinctus	ENSDNOG00000004334	1 retrocopy	retro_dnov_1229,
Otolemur garnettii	ENSOGAG00000001879	1 retrocopy	retro_ogar_2992 ,
Rattus norvegicus	ENSRNOG00000037765	1 retrocopy	retro_rnor_432,