RetrogeneDB ID: retro_ogar_3490

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873926.1:34042..34947(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARIH1
• Ensembl ID: ENSOGAG00000012095
• Aliases: None
• Description: ariadne homolog, ubiquitin-conjugating enzyme E2 binding protein, 1 (Drosophila) [Source:HGNC Symbol;Acc:689]

Sequence

>retro_ogar_3490
AGGTTAAAGTATCAGCATTTAATAACAAATAGTTATGTAGAGTGCAATCAGCTATTAAAATTGTGTCCTGCCCCAAATTC
TCATCATATTGTCAAAGTTAATATCCTGATGCTAAGCCTGTTTGCTGCAAATGTGGGCACCAATTCTGCTTTAACTGTGG
AGAAAATTGGCATAATCCTGTTAAATGTAAGTGGGTAAAGAAGTGGATTAAAAACTGTGATGACAGTGAAACTTCCAATT
GGATTGCAGCCAACACAAAGGAATGTCCCAAATGCCATGTCACAATTTAAAAGGATGGCAGTTGTAATCACATGGTCTGT
TGTAACCAGAACTATAAAGCCAAGTTTTGTTGGGTGTGTCTTGGCCCTTGGGAACCACATGGATCTGCCTGGTACAACTG
TAACTATTATAAAGAGGAAGATGCAAAGGCAGCAAGAGAAGCACAGGAGCGATCTAGGGCAGCCTGGCAGAGGTACCTGT
TCGCCTGTAATCACTATATGAACCACATGCAGAGTCTGGGCTTTGAGCACAAACTGTATGCTCAGGTGAAGCAGAAAATG
GAAGAAATGCAACCGCACAACATGTCCCAGATTGACGTGCAGTCCCTGAAGAAAGTAGTTGATGTCCTCTGTCAGTGTTG
TGCCACACTCATGTACATATATGTCTTCACTTTCTACCTCAAAAAGAACAACCAGTCTATTATCTTTGAGAATAACTAAG
CAGATCTAGAGAATGCCACAGAGCTGCTTTTGGGCTACTTTGAACAAGATATTTCCCAAGATTCACTGCAGGATCTATAG
CAGAAAGTACAAGGTAACTACAGATACTGTGAGAGTCAATGGAGGGTTTTGTTACAACATGTACACGAAGACTATGAAAA
AGATCTGTGGGAGTACACTGAGGAC

Alignment

ORF - retro_ogar_3490 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.88 %
• Parental protein coverage: 54.5 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KLKYQHLITNSFVECNRLLKWCPAPDCHHVVKVQ-YPDAKPVRCKCGRQFCFNCGENWHDPVKCKWLKKW
          .LKYQHLITNS.VECN.LLK.CPAP..HH.VKV..YPDAKPV.CKCG.QFCFNCGENWH.PVKCKW.KKW
Retrocopy RLKYQHLITNSYVECNQLLKLCPAPNSHHIVKVN<YPDAKPVCCKCGHQFCFNCGENWHNPVKCKWVKKW

Parental  IKKCDDDSETSNWIAANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGSAWYNCNRYN
          IK.C.DDSETSNWIAANTKECPKCHVTI.KDG.CNHMVC.NQN.KA.FCWVCLGPWEPHGSAWYNCN.Y.
Retrocopy IKNC-DDSETSNWIAANTKECPKCHVTI*KDGSCNHMVCCNQNYKAKFCWVCLGPWEPHGSAWYNCNYYK

Parental  EDDAKAARDAQERSRAALQRYLFYCNRYMNHMQSLRFEHKLYAQVKQKMEEMQQHNMSWIEVQFLKKAVD
          E.DAKAAR.AQERSRAA.QRYLF.CN.YMNHMQSL.FEHKLYAQVKQKMEEMQ.HNMS.I.VQ.LKK.VD
Retrocopy EEDAKAAREAQERSRAAWQRYLFACNHYMNHMQSLGFEHKLYAQVKQKMEEMQPHNMSQIDVQSLKKVVD

Parental  VLCQCRATLMYTYVFAFYLKKNNQSIIFENNQADLENATEVLSGYLERDISQDSLQDIKQKVQDKYRYCE
          VLCQC.ATLMY.YVF.FYLKKNNQSIIFENN.ADLENATE.L.GY.E.DISQDSLQD..QKVQ..YRYCE
Retrocopy VLCQCCATLMYIYVFTFYLKKNNQSIIFENN*ADLENATELLLGYFEQDISQDSLQDL*QKVQGNYRYCE

Parental  SRRRVLLQHVHEGYEKDLWEYIED
          S..RVLLQHVHE.YEKDLWEY.ED
Retrocopy SQWRVLLQHVHEDYEKDLWEYTED

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_3490 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000012095	1 retrocopy	retro_ogar_3490 ,
Sus scrofa	ENSSSCG00000001922	2 retrocopies	retro_sscr_142, retro_sscr_200,
Drosophila melanogaster	FBgn0017418	1 retrocopy	retro_dmel_25,