RetrogeneDB ID: retro_ogar_3470

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873869.1:276594..277099(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMBIM6
• Ensembl ID: ENSOGAG00000005137
• Aliases: None
• Description: transmembrane BAX inhibitor motif containing 6 [Source:HGNC Symbol;Acc:11723]

Sequence

>retro_ogar_3470
ACCCCCTCCACACAGCAGCACCTGAAGAAGGTCTGTGCAAGTTTTGTCCTATGTATGTTGTGACAGCTGCTGTAGCTTAT
GGCCATGTGATCATTCACTTCATTCCGGTTGGTCTGCTCTGTGCCTTGGGATCCTTGGGTTGATGATTTGGCTGATGGCA
ACACCTCGTAGCCATGAAACTGAGCAGAAAAGACTGGGACTTCTTGCTGGATTTTCTTTCCTTACAGGAGTTGGCCTGGG
CTCTGCCCTCTAGTTGTGCATTGCCATCAATCCCAGAATCCTTCCTACTGCCTTCATGGGCACAGCAGTGATCTTCACCT
GTTTCTCCCTGAGTGCACTCTATGGCCAGCATCACAGCTACCTCTTTCTGGGAGGTATTTTGATGTCAGCCATGAGCCAG
ATGTTCTTGTCTTCCATGGGAGAACTTTTCTTTGGATCCATTTGGCTTTTCCAGGCAAACCTGTATATGGGGCTGGTGGT
CATGTGTGGCTTTGTCCTTTTTGAC

Alignment

ORF - retro_ogar_3470 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.46 %
• Parental protein coverage: 77.52 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TPSTQQHLKKVYASFALCMF-VAAAGAYVHVVTHFIQAGVLSALGSLG-LMIWLMATPHTHETEQKRLGL
          TPSTQQHLKKV.ASF.LCM..V.AA.AY.HV..HFI..G.L.ALGSLG.LMIWLMATP..HETEQKRLGL
Retrocopy TPSTQQHLKKVCASFVLCML<VTAAVAYGHVIIHFIPVGLLCALGSLG<LMIWLMATPRSHETEQKRLGL

Parental  LAGFAFLTGVGLGPALELCIAINPSILPTAFMGTAMIFTCFTLSALYARRRSYLFLGGILMSAMSLMFLS
          LAGF.FLTGVGLG.AL.LCIAINP.ILPTAFMGTA.IFTCF.LSALY....SYLFLGGILMSAMS.MFLS
Retrocopy LAGFSFLTGVGLGSAL*LCIAINPRILPTAFMGTAVIFTCFSLSALYGQHHSYLFLGGILMSAMSQMFLS

Parental  SLGNLFFGSIWLFQANLYVGLVVMCGFVLFD
          S.G.LFFGSIWLFQANLY.GLVVMCGFVLFD
Retrocopy SMGELFFGSIWLFQANLYMGLVVMCGFVLFD

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_3470 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 11 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000018588	1 retrocopy	retro_btau_762,
Canis familiaris	ENSCAFG00000008400	2 retrocopies	retro_cfam_1220, retro_cfam_876,
Callithrix jacchus	ENSCJAG00000021032	1 retrocopy	retro_cjac_272,
Dasypus novemcinctus	ENSDNOG00000007882	2 retrocopies	retro_dnov_164, retro_dnov_857,
Macropus eugenii	ENSMEUG00000015590	4 retrocopies	retro_meug_1076, retro_meug_1706, retro_meug_2157, retro_meug_48,
Monodelphis domestica	ENSMODG00000004277	2 retrocopies	retro_mdom_210, retro_mdom_250,
Otolemur garnettii	ENSOGAG00000005137	2 retrocopies	retro_ogar_1074, retro_ogar_3470 ,
Pteropus vampyrus	ENSPVAG00000016821	1 retrocopy	retro_pvam_755,
Sarcophilus harrisii	ENSSHAG00000010366	1 retrocopy	retro_shar_622,
Ictidomys tridecemlineatus	ENSSTOG00000001165	2 retrocopies	retro_itri_1273, retro_itri_564,
Tarsius syrichta	ENSTSYG00000002427	1 retrocopy	retro_tsyr_916,