RetrogeneDB ID: retro_ogar_1552

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873551.1:12036429..12036845(+)
• Located in intron of: ENSOGAG00000000171

Retrocopy information

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

Parental gene information

• Parental gene symbol: KLHL12
• Ensembl ID: ENSOGAG00000014771
• Aliases: None
• Description: kelch-like family member 12 [Source:HGNC Symbol;Acc:19360]

Sequence

>retro_ogar_1552
ACTAAGCTTTCAGAGAAGGAGAAACTATATTTTGATATCCAAGGTTTAACTGTCTCTACCATGGAAATCCTATTAGACTT
TGCGTACACAGAAATGGTACATGTGATAGTAGAAAATGTACAAGAACTGCTCCCTGAACCCTGTATGCTTCAGCTGAGAG
GTGTAAAGCAAGCCTGCTGCGAGTTCTTAGAAAGTCCCTTAGACCCTTCTAATTGCCTGGGTATCAGGAATTTTGCTGAA
ACCCACAATTATGTTGACCTAATGCCAGCACCTGAGGTTTTTAACCAGAGGCATTTTTCTGAAGTGGTACTGCATGAAGA
GTTCATTCTTCTAGTCAAGGAGAGGTGGAAAAGCTAATCAAGTGTGATGAAATTCAGGTAGATTCTGAAGAACCAGTCTT
TGAGGCTGTCATCAAC

Alignment

ORF - retro_ogar_1552 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.57 %
• Parental protein coverage: 53.26 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SELSEKGKPYVDIQGLTASTMEILLDFVYTETVHVTVENVQELLPAACLLQLKGVKQACCEFLESQLDPS
          ..LSEK.K.Y.DIQGLT.STMEILLDF.YTE.VHV.VENVQELLP..C.LQL.GVKQACCEFLES.LDPS
Retrocopy TKLSEKEKLYFDIQGLTVSTMEILLDFAYTEMVHVIVENVQELLPEPCMLQLRGVKQACCEFLESPLDPS

Parental  NCLGIRDFAETHNCVDLMQAAEVFSQKHFPEVVQHEEFILL-SQGEVEKLIKCDEIQVDSEEPVFEAVIN
          NCLGIR.FAETHN.VDLM.A.EVF.Q.HF.EVV.HEEFILL.SQGEVEKLIKCDEIQVDSEEPVFEAVIN
Retrocopy NCLGIRNFAETHNYVDLMPAPEVFNQRHFSEVVLHEEFILL<SQGEVEKLIKCDEIQVDSEEPVFEAVIN

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_1552 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 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006231	1 retrocopy	retro_cjac_2151,
Dasypus novemcinctus	ENSDNOG00000010436	1 retrocopy	retro_dnov_2190,
Echinops telfairi	ENSETEG00000007800	2 retrocopies	retro_etel_2103, retro_etel_723,
Homo sapiens	ENSG00000117153	1 retrocopy	retro_hsap_2545,
Macaca mulatta	ENSMMUG00000017849	1 retrocopy	retro_mmul_612,
Nomascus leucogenys	ENSNLEG00000018103	1 retrocopy	retro_nleu_2795,
Otolemur garnettii	ENSOGAG00000014771	1 retrocopy	retro_ogar_1552 ,
Pongo abelii	ENSPPYG00000000343	1 retrocopy	retro_pabe_1872,
Pan troglodytes	ENSPTRG00000001861	1 retrocopy	retro_ptro_1483,