RetrogeneDB ID: retro_ogar_946

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873531.1:18747487..18747781(+)
• Located in intron of: ENSOGAG00000015258

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM242
• Ensembl ID: ENSOGAG00000007646
• Aliases: None
• Description: transmembrane protein 242 [Source:HGNC Symbol;Acc:17206]

Sequence

>retro_ogar_946
TCGTCCTCTTGGCTGGAAGCTTCGGGCTCCACCAACGACTCACTTCTCCGGGTTAAAGGTGTAATTTCCTAGGTCCGCCT
GCTGCAGCGGGACTGCTGGCTGGATTGTTACGACATTACCATTGGCTAAAAAGCAAAGCTCTGAATGATTCACTAAGAGA
CCTGTGGCCACGTCTGCCCTCGTGGAGAGCGGGGCTTCCCTGCCTTGTGAGCTCTGGGACTGGCCTCACTTTGTGCACGG
TGTGGGGTTGCTGTGATCAGCTTTGCAGTCTGGAAAGCTTTAGGCATTCACAGT

Alignment

ORF - retro_ogar_946 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.65 %
• Parental protein coverage: 70.21 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SSSRLETSGSTEDRLFLVKGGI-FLGTVAAAGMLAGF-VTTLSLAKKKSPEWFNKGSMATAALPESGSSL
          SSS.LE.SGST.D.L..VKG.I.FLG..AAAG.LAG..VTTL.LAKK.S.E.F.K...AT.AL.ESG.SL
Retrocopy SSSWLEASGSTNDSLLRVKGVI<FLGPPAAAGLLAGL<VTTLPLAKKQSSE*FTKRPVATSALVESGASL

Parental  -ALRALGWGSLYAWCGVGMISFAVWKALGVHS
          .AL.ALG..SL.A.CGV..ISFAVWKALG.HS
Retrocopy <AL*ALGLASLCARCGVAVISFAVWKALGIHS

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_946 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009699	1 retrocopy	retro_amel_1551,
Cavia porcellus	ENSCPOG00000022213	1 retrocopy	retro_cpor_160,
Equus caballus	ENSECAG00000016335	1 retrocopy	retro_ecab_898,
Homo sapiens	ENSG00000215712	1 retrocopy	retro_hsap_1016,
Macaca mulatta	ENSMMUG00000011814	1 retrocopy	retro_mmul_812,
Nomascus leucogenys	ENSNLEG00000010676	1 retrocopy	retro_nleu_222,
Otolemur garnettii	ENSOGAG00000007646	1 retrocopy	retro_ogar_946 ,
Pongo abelii	ENSPPYG00000017271	1 retrocopy	retro_pabe_853,
Pan troglodytes	ENSPTRG00000018735	1 retrocopy	retro_ptro_747,