RetrogeneDB ID: retro_ogar_2596

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873637.1:4441412..4441831(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000003058
• Aliases: None
• Description: None

Sequence

>retro_ogar_2596
ATGGACAAACAGAGTCATAACAGGACATCCTCTGGTGTGAAAAAATTCAACTGTTGATCAAATGAAGGCAAAATTGAAGC
CCCCATGGATGAATCTGAAGAACTGGAATTCTTAAGGGTGATCAACATAGGCCTCTCCTCATTCTCAAACTTACCAAAGT
TAAACAAACTCAAGAGGTTTGAACTAAGCAATAATACAATCTCAGCAGGCATAGAAGTATTGGCCGAACCTCACACATTT
AAATTTAACTGACAACAAAATTAAAGACCTCAGTAGAATAGAACCAAGCCACTAAAAAAAGTTAGGAAACCTCAAGAGCT
TAGACCTTTTTTCAGTTGTGAGGTAACCAACTGAACTACAACAAAGAAAATGTGTTCAAGCTCCTTCCCAAACTCACATA
TTTGGATGGCTATCACAGA

Alignment

ORF - retro_ogar_2596 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.67 %
• Parental protein coverage: 59.68 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MDKRIHLELRNRTPSDVKELVLDNCRSNEGKIEGLTDEFEELEFLSTINVGLSSVANLPTLNKLKKLELS
          MDK..H....NRT.S.VK.....NC.SNEGKIE...DE.EELEFL..IN.GLSS..NLP.LNKLK..ELS
Retrocopy MDKQSH----NRTSSGVKKF---NC*SNEGKIEAPMDESEELEFLRVINIGLSSFSNLPKLNKLKRFELS

Parental  DNRISGGLEVLAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSL-DLFNCEVTN-LNDYRENVFKLLP
          .N.IS.G.EVLAE..P.....N...N.........PLKK......L...F.CEVTN.LN...ENVFKLLP
Retrocopy NNTISAGIEVLAE--PHTFKFN*QQN*RPQ*NRTKPLKKVRKPQELRPFFSCEVTN<LNYNKENVFKLLP

Parental  QLTYLDGYDR
          .LTYLDGY.R
Retrocopy KLTYLDGYHR

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_2596 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 11 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002339	2 retrocopies	retro_cjac_3305, retro_cjac_3799,
Homo sapiens	ENSG00000140350	3 retrocopies	retro_hsap_1479, retro_hsap_3117, retro_hsap_48,
Gorilla gorilla	ENSGGOG00000015417	1 retrocopy	retro_ggor_1134,
Nomascus leucogenys	ENSNLEG00000013347	2 retrocopies	retro_nleu_15, retro_nleu_2383,
Otolemur garnettii	ENSOGAG00000003058	1 retrocopy	retro_ogar_2596 ,
Otolemur garnettii	ENSOGAG00000006091	2 retrocopies	retro_ogar_1915, retro_ogar_3282,
Ochotona princeps	ENSOPRG00000015394	2 retrocopies	retro_opri_302, retro_opri_563,
Pongo abelii	ENSPPYG00000006595	2 retrocopies	retro_pabe_210, retro_pabe_2575,
Pan troglodytes	ENSPTRG00000007219	2 retrocopies	retro_ptro_2108, retro_ptro_758,
Rattus norvegicus	ENSRNOG00000045651	1 retrocopy	retro_rnor_1043,
Sarcophilus harrisii	ENSSHAG00000010906	1 retrocopy	retro_shar_540,