RetrogeneDB ID: retro_ogar_1019

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873533.1:23899379..23900107(-)
• Located in intron of: ENSOGAG00000027630

Retrocopy information

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

Parental gene information

• Parental gene symbol: STRADB
• Ensembl ID: ENSOGAG00000010744
• Aliases: None
• Description: STE20-related kinase adaptor beta [Source:HGNC Symbol;Acc:13205]

Sequence

>retro_ogar_1019
CATCAGAATGGCTGTATTCATAGGAGTTTTAAAGCCAACCATATCCTCATTTCTGGTGATGGTCTGGTGACTCTCTCGGG
CCTTTCCTATCTGCATGGTTTGATTAAGCATGGACAGAGGCATAGGGCTGTGTATGATTTCCTACAGTGCAGCACATCAG
TGCAGCTGCAGCTGAGTCCAGAACTACTGAGACAGGATTTACATGGGTATAGTGTGAAGTCAGATATTTACAGTGTTGGG
ATTACAGCATGTGAATTAGCCAGTGGAAAAGTACCTTTCAAAGACATGCATAGTACTCAGATGCTGTCACAGAAACTGAA
AGGTCTCCTTATAGCCCATAGGATATCAGTATTTTCCCTCAGTCAGAATCCAGAATGAAAAGTTCCTGATCAGGTGTAGA
CTCCAGGATTGGAGAAAGTGTACTTGTCTCCGGGGGAACTCACACAGTCAACAGTGACCAGTTACATACACCATCCTCAA
AAACCTTTTCTCCTGCCTTCTTTAGCTTGATACAGCTCTGTTTGCAACAAGATCCTGAGAAAAGGCCATCAGCAAGCAGT
TTATTGTCTCATGTTTTCTTCAAACAGATGAAAGAAGAAAGCCAGGATTTGATACTTTCACCATTGCCTCCTGCTTATAA
CAAGCCATCAATATCACTGCCTCCCGTATTACCTTGGACTGAACCAAAATGTGATTTTCCTGATAAAAAAGACACAAACT
GGGAATTC

Alignment

ORF - retro_ogar_1019 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.57 %
• Parental protein coverage: 58.27 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HQNGCIHRSFKASHILISGDGLVTLSGLSRLHSLIKHGQRHRAVYDFPQFSTSVQPWLSPELLRQDLHGY
          HQNGCIHRSFKA.HILISGDGLVTLSGLS.LH.LIKHGQRHRAVYDF.Q.STSVQ..LSPELLRQDLHGY
Retrocopy HQNGCIHRSFKANHILISGDGLVTLSGLSYLHGLIKHGQRHRAVYDFLQCSTSVQLQLSPELLRQDLHGY

Parental  NLKSDIYSVGITACELASGKVPFQDMHSTQMLLQKLKG-PPYSPLDISIFPQSESRMKSSRSGVDSGIGE
          ..KSDIYSVGITACELASGKVPF.DMHSTQML.QKLKG..PYSP.DISIFPQSESRMKSS.SGVDS.IGE
Retrocopy SVKSDIYSVGITACELASGKVPFKDMHSTQMLSQKLKG<SPYSP*DISIFPQSESRMKSS*SGVDSRIGE

Parental  SVLVSSGTHTVNSDRLHTPSSKTFSPAFFSLVQLCLQQDPEKRPSASSLLSHVFFKQMKEESQDSILSLL
          SVLVS.GTHTVNSD.LHTPSSKTFSPAFFSL.QLCLQQDPEKRPSASSLLSHVFFKQMKEESQD.ILS.L
Retrocopy SVLVSGGTHTVNSDQLHTPSSKTFSPAFFSLIQLCLQQDPEKRPSASSLLSHVFFKQMKEESQDLILSPL

Parental  PPAYNKPSISLPPVLPWTEPECDFPDKKDSNWEF
          PPAYNKPSISLPPVLPWTEP.CDFPDKKD.NWEF
Retrocopy PPAYNKPSISLPPVLPWTEPKCDFPDKKDTNWEF

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_1019 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
Homo sapiens	ENSG00000082146	2 retrocopies	retro_hsap_147, retro_hsap_3920,
Gorilla gorilla	ENSGGOG00000012183	1 retrocopy	retro_ggor_2638,
Macaca mulatta	ENSMMUG00000018141	1 retrocopy	retro_mmul_1741,
Nomascus leucogenys	ENSNLEG00000006967	1 retrocopy	retro_nleu_2158,
Otolemur garnettii	ENSOGAG00000010744	1 retrocopy	retro_ogar_1019 ,
Pongo abelii	ENSPPYG00000013074	1 retrocopy	retro_pabe_3192,