RetrogeneDB ID: retro_ogar_2064

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873587.1:2652933..2653359(+)
• Located in intron of: ENSOGAG00000005978

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM162A
• Ensembl ID: ENSOGAG00000003194
• Aliases: None
• Description: family with sequence similarity 162, member A [Source:HGNC Symbol;Acc:17865]

Sequence

>retro_ogar_2064
AGTTGTTTAAGGTTATATGAAAGAGATGTTTGTTCATCTCTAAGGCTTACCAGAAACACTGATTTGAAGAGAATAAATGG
ATTTTGCACCAAACCACAAGAAAGTGCCAGAGCTCCATCCCATACCTACAGCCACGGAGTGCCTTTACACAAACCCACGG
ATTGGGAGAAAAAGATGCTGATATGATCAGGTCACTTCAAAAATGAAGATGAAATCCCAGAGACCATCTCGTCTGAGATG
CTTGATGCTGCCAAAAATAAGATTCGGATGAAGATAAGCTATGTAATGATTGCCCTGACAGTGGCAGGATGTATCCTGAT
AGTTATTGAAGACAAGGAGGCTGCCAAAAGACACGAGAGTTTAACAAGTATGAACTTAGAAAGGAAAGCTTGTCTGAGAG
AGGAAGCAGCTATGAAGGACATAGAG

Alignment

ORF - retro_ogar_2064 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.85 %
• Parental protein coverage: 93.42 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SCLRLYERDVYSSLRLTRNTDLKRIIGFCTKPQESARAPSHTYSHRVPLHKPTDWEKKMLIWSGRFKKED
          SCLRLYERDV.SSLRLTRNTDLKRI.GFCTKPQESARAPSHTYSH.VPLHKPTDWEKKMLI.SG.FK.ED
Retrocopy SCLRLYERDVCSSLRLTRNTDLKRINGFCTKPQESARAPSHTYSHGVPLHKPTDWEKKMLI*SGHFKNED

Parental  EIPETISFEMLDAAKNKIRVKISYVMIALTVAGCILMVIEGKKAAKRHESLTSMNLERKARLREEAAMKD
          EIPETIS.EMLDAAKNKIR.KISYVMIALTVAGCIL.VIE.K.AAKRHESLTSMNLERKA.LREEAAMKD
Retrocopy EIPETISSEMLDAAKNKIRMKISYVMIALTVAGCILIVIEDKEAAKRHESLTSMNLERKACLREEAAMKD

Parental  KE
          .E
Retrocopy IE

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_2064 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014316	1 retrocopy	retro_amel_1533,
Monodelphis domestica	ENSMODG00000018300	1 retrocopy	retro_mdom_785,
Mustela putorius furo	ENSMPUG00000004773	1 retrocopy	retro_mputfur_1616,
Otolemur garnettii	ENSOGAG00000003194	1 retrocopy	retro_ogar_2064 ,
Rattus norvegicus	ENSRNOG00000002255	2 retrocopies	retro_rnor_2587, retro_rnor_337,
Tursiops truncatus	ENSTTRG00000013401	1 retrocopy	retro_ttru_791,