RetrogeneDB ID: retro_ogar_1866

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873570.1:12730952..12731407(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AAED1
• Ensembl ID: ENSOGAG00000017058
• Aliases: None
• Description: AhpC/TSA antioxidant enzyme domain containing 1 [Source:HGNC Symbol;Acc:16881]

Sequence

>retro_ogar_1866
GCTGCTGACGCTATTGCTCAGGTCTCGTGACAGATTACTGTCTGCGGCTGTGCAGTCCCAGCCCGGGCCAGGCCCTGGGC
AGCCCGAGAAGGCCTGAGGGCAGGCGGCTTCTGGCAGCCACAGTGGCCAGGAGCTGCCGGCGCAGGATGCCTCCTGTGAG
CTGGTGCTGTTTGGTACCCTGTTCCAAGAGCGCTGAGCCATGTGGTCTTCGTGTGGCCTTGCCTGTGTTATATCTGTAGG
GAATACGTGGAAGGTCTGGCCAAAATCCCCCAAAGTATCTTACAGTAAGCAAATGTGACCCTTATAGTGATTGGACAGTC
ATCCTACTATCATACTGAGCCTTTTTGCAAACTGGGTATTCCCATAAAATCTATGTTGATCCCCAGAGAAAAATTTATAA
AAAATTGGGAATGAAAAGAGGTGAAGAAATAGCCTCCACAGGACAGCCCCCACAT

Alignment

ORF - retro_ogar_1866 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.59 %
• Parental protein coverage: 64.35 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  ASAAVAPVTQQVS--GCA-APAPGPALSG-PER--GQPLAASVA--ELPVQDASGKRVPFGALFRERQAI
          A..A.A.V..Q....GCA..P.PG.AL...PE...GQ....S....ELP.QDAS...V.FG.LF.ER.A.
Retrocopy AADAIAQVS*QITVCGCA<SPSPGQALGS<PEKA*GQAASGSHSGQELPAQDASCELVLFGTLFQER*AM

Parental  -VVFVRHFLCYICKEYVEDLAKIPKSVLQEADVTLIVIGQSSYHHIEPFCKLTGYSHEIYVDPEREIYK-
          .VVFV...LCYIC.EYVE.LAKIP.S.LQ.A.VTLIVIGQSSY.H.EPFCKL.G........P.....K.
Retrocopy <VVFVWPCLCYICREYVEGLAKIPQSILQ*ANVTLIVIGQSSYYHTEPFCKL-GIPIKSMLIPREKFIK<

Parental  KLGMKRGEELASAGQSPH
          KLGMKRGEE.AS.GQ.PH
Retrocopy KLGMKRGEEIASTGQPPH

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_1866 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 10 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006422	1 retrocopy	retro_chof_1792,
Choloepus hoffmanni	ENSCHOG00000007723	7 retrocopies	retro_chof_1026, retro_chof_1037, retro_chof_1808, retro_chof_2079, retro_chof_2149, retro_chof_2642, retro_chof_811,
Callithrix jacchus	ENSCJAG00000005509	1 retrocopy	retro_cjac_4168,
Dasypus novemcinctus	ENSDNOG00000024562	4 retrocopies	retro_dnov_1226, retro_dnov_1419, retro_dnov_1519, retro_dnov_1871,
Homo sapiens	ENSG00000158122	1 retrocopy	retro_hsap_4843,
Macaca mulatta	ENSMMUG00000008295	1 retrocopy	retro_mmul_2586,
Otolemur garnettii	ENSOGAG00000017058	1 retrocopy	retro_ogar_1866 ,
Procavia capensis	ENSPCAG00000003177	1 retrocopy	retro_pcap_269,
Pongo abelii	ENSPPYG00000019418	1 retrocopy	retro_pabe_3765,
Pan troglodytes	ENSPTRG00000021156	1 retrocopy	retro_ptro_3227,