RetrogeneDB ID: retro_ogar_2524

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873631.1:515060..515727(-)
• Located in intron of: ENSOGAG00000000807

Retrocopy information

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

Parental gene information

• Parental gene symbol: TOMM40L
• Ensembl ID: ENSOGAG00000013733
• Aliases: None
• Description: translocase of outer mitochondrial membrane 40 homolog (yeast)-like [Source:HGNC Symbol;Acc:25756]

Sequence

>retro_ogar_2524
GGAAATACATTGGGCCTGACACTGATGGGGACTTTGCCCCACCAGACTCCCGAGAAAGAAGAGCCTCCACATAACTATGG
GAGCTTTGGTGAACTGCGTTAGCTATGCAAAGATGTATTCCCAGCACAGATGCAGGAGTGAAGTGCATTGTCAACGTTCT
GAGCAGCTACGTCCAGATGGCTCACACTATAGACATGAGTACCCTGGGCTTGCTGGCCTATCACCTCCATGTGGCCTACA
CAAGGGATTGTCAGCTTAGCCCCACTGAGGTTCCCTTTTGTGGTAGGGATGTGGACAGAAGTGGCAGCTGGTAACACTCA
GGTTCTGCTCCTCTTGGCCTAGCAGCTCTAAGTAAGGCTGTCTTCCAGATGCAGCAGGCCAAGTCCCTGACATGGCAGTT
TCATGGAGAGTATCAGCGAGATGACTACAGAGCTATTCTGACCCTAGGAAATCCTGAGCTGACTGAGGAATTGGTGATCA
TGGTTGCTCATTTCCTGCAGAGCCTCACTCATTGGCTAGTGCCAGGAGGACTGCTAGTTTATCATGGGTAACCAGGTGAA
AAGGGGGTCATCTTAACACTGGCTGGGAAATACTGGCTGTACACTGGGTAGGTACACTGAATGGGGGATCAGATAGGACC
CAAAAGAGTTGCTACCACAGGGCAAAT

Alignment

ORF - retro_ogar_2524 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.12 %
• Parental protein coverage: 73.05 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  GNTLGLAPMGTLPRRSPRREEPLPNPGRFDELHRLCKDVFPAQME-GVKLVVNKVLSSHFQVAHTIHMSA
          GNTLGL..MGTLP...P..EEP..N.G.F.EL..LCKDVFPAQM..GVK..VN.VLSS..Q.AHTI.MS.
Retrocopy GNTLGLTLMGTLPHQTPEKEEPPHNYGSFGELR*LCKDVFPAQMQ<GVKCIVN-VLSSYVQMAHTIDMST

Parental  LGLPGYHLHAAYAGDWQLSPTEVFPTVVGDMDSSGSL-NAQVLLLLAERL-RAKAVFQTQQAKFLTWQFD
          LGL..YHLH.AY..D.QLSPTEV.P....D.D.SGS..N.QVLLLLA..L...KAVFQ.QQAK.LTWQF.
Retrocopy LGLLAYHLHVAYTRDCQLSPTEV-PFCGRDVDRSGSW>NTQVLLLLA*QL<LSKAVFQMQQAKSLTWQFH

Parental  GEYRGDDYTATLTLGNPDLIGESVIMVAHFLQSLTHRLVLGGELVYHRRPGEEGAILTLAGKY-SAVHWV
          GEY..DDY.A.LTLGNP.L..E.VIMVAHFLQSLTH.LV.GG.LVYH..PGE.G.ILTLAGKY..AVHWV
Retrocopy GEYQRDDYRAILTLGNPELTEELVIMVAHFLQSLTHWLVPGGLLVYHG*PGEKGVILTLAGKY<LAVHWV

Parental  ATLNVGSGGAHASYYHRAN
          .TLN.GS.....S.YHRAN
Retrocopy GTLNGGSDRTQKSCYHRAN

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_2524 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000004808	1 retrocopy	retro_eeur_472,
Echinops telfairi	ENSETEG00000015755	2 retrocopies	retro_etel_1124, retro_etel_1461,
Gorilla gorilla	ENSGGOG00000005720	2 retrocopies	retro_ggor_1075, retro_ggor_1761,
Otolemur garnettii	ENSOGAG00000013733	1 retrocopy	retro_ogar_2524 ,
Ictidomys tridecemlineatus	ENSSTOG00000003800	2 retrocopies	retro_itri_301, retro_itri_724,
Drosophila melanogaster	FBgn0016041	1 retrocopy	retro_dmel_74,