RetrogeneDB ID: retro_ogar_3361

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873801.1:928015..928652(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000016866
• Aliases: None
• Description: None

Sequence

>retro_ogar_3361
ATCACCTACAGACTTGGATTAATTCCCCTCTTTAGTTCTGACATTATGGACAAGTTGCAATACTACTGGGACTATACACA
TGAAGAGTTCTGTCTGGAGTGCTCAGAGGAGTTTTCGCTTGATGTGTGGTGTAATGAAGACTAGACTTGTCACTTCACAT
CTTCAGACCTTGTCTACAACCACTATCAGGTCATTTTGGTGATATCTTGGAGCCAAGATAATGACCCCAATGACTATGTG
GAACAGGATGACATTCTCATTGTCAAGTTGACAAAGGGCCAGGAGTTCAGACTTCAAGCTTATGCTAAAATTTTTTTTTG
GCAAAGAACATGCCAAGTAGAACTGTACTGCAGGGATGGCTTTTTAATATAATTCAGAAAATGTTCTGAGGCACACAGTG
TACCTAAACCCTGAGTAATGGCCAAAGAGTGAGTACTTGGAGCTGGATGAGGATGTGTCCCAGGCTCCCTATTACCCCAA
TAGCAAGCCAGAAAAATTTTGCTACAATGTGGAGTCCTGTGACTCTCAGCAACCTGAAACCATTGCCCTCTCAGCCCTCT
CCAGATGTTAGAAGAAACTGAGTGATTTACAGACTCAATTAAGCCATTAGATCCAGAGTTATGAACTAACCATAAAC

Alignment

ORF - retro_ogar_3361 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.77 %
• Parental protein coverage: 77.09 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IAHRLGLIPLISDDIVDKLQYSRDCTCEEFCPECSVEFTLDVRCNEDQTRHVTSRDLVSNHHRVIPVTSR
          I..RLGLIPL.S.DI.DKLQY..D.T.EEFC.ECS.EF.LDV.CNED.T.H.TS.DLV.NH..VI.V.S.
Retrocopy ITYRLGLIPLFSSDIMDKLQYYWDYTHEEFCLECSEEFSLDVWCNED*TCHFTSSDLVYNHYQVILVISW

Parental  SRDNDPNDYVEQDDILIVKLRKGQELRLRAYAKKGF-GKEHAKWNPTAGVAFEYDPDNALRHTVYPKPEE
          S.DNDPNDYVEQDDILIVKL.KGQE.RL.AYAK....GKEHAK.N.TAG.AF.Y...N.LRHTVY..PE.
Retrocopy SQDNDPNDYVEQDDILIVKLTKGQEFRLQAYAKXXX>GKEHAK*NCTAGMAF*YNSENVLRHTVYLNPE*

Parental  WPKSEYSELDEDESQAPYDPNGKPERFYYNVESCGSLRPETIVLSALSGLKKKLSDLQTQLSHEIQSDVL
          WPKSEY.ELDED.SQAPY.PN.KPE.F.YNVESC.S..PETI.LSALS...KKLSDLQTQLSH.IQS..L
Retrocopy WPKSEYLELDEDVSQAPYYPNSKPEKFCYNVESCDSQQPETIALSALSRC*KKLSDLQTQLSH*IQSYEL

Parental  TIN
          TIN
Retrocopy TIN

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_3361 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 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008720	1 retrocopy	retro_cfam_688,
Choloepus hoffmanni	ENSCHOG00000002986	1 retrocopy	retro_chof_1988,
Callithrix jacchus	ENSCJAG00000012016	1 retrocopy	retro_cjac_2026,
Dipodomys ordii	ENSDORG00000000081	1 retrocopy	retro_dord_704,
Echinops telfairi	ENSETEG00000004185	1 retrocopy	retro_etel_1953,
Homo sapiens	ENSG00000102978	1 retrocopy	retro_hsap_2496,
Gorilla gorilla	ENSGGOG00000012415	1 retrocopy	retro_ggor_1557,
Myotis lucifugus	ENSMLUG00000015833	2 retrocopies	retro_mluc_129, retro_mluc_236,
Macaca mulatta	ENSMMUG00000020474	1 retrocopy	retro_mmul_1674,
Mus musculus	ENSMUSG00000031783	1 retrocopy	retro_mmus_1723,
Nomascus leucogenys	ENSNLEG00000003034	1 retrocopy	retro_nleu_1431,
Otolemur garnettii	ENSOGAG00000016866	1 retrocopy	retro_ogar_3361 ,
Ochotona princeps	ENSOPRG00000006979	1 retrocopy	retro_opri_445,
Pongo abelii	ENSPPYG00000007390	1 retrocopy	retro_pabe_1839,
Pan troglodytes	ENSPTRG00000008157	1 retrocopy	retro_ptro_1448,