RetrogeneDB ID: retro_ogar_2366

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873615.1:3297255..3297961(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM70
• Ensembl ID: ENSOGAG00000012823
• Aliases: None
• Description: transmembrane protein 70 [Source:HGNC Symbol;Acc:26050]

Sequence

>retro_ogar_2366
AGTGTGTTGTGGGCAGCTAGTGAGTTTCAAGGCCCTAGGGAAGCTGTCTCCCAGGTCACCTCTGCAGCTGACTCTCCCAG
CTGTTAGCAGCTGGGGCACAGGGCTCTGCAGAGCTGTGCCTCTTCTCTGGCATCCCGGGTGAGCACAGATACATGTCTTG
GGAGGAAGGATGTGTTCCAAGTGGCATACACAGTTTGACCAATCAGAAGATCGAAGGCTGATTCACATGGGGAATTTGGC
CCAAACGGTATTTGGTGTGAAGTATTTCTCTTATTCCACGAGTATGATCAGTCTTGCATTTTTACTGTACATTTTTGCAT
CAAATAATAATATATTTGTAAGTCTACCTTTGCAAATCTTATTTTATGGCATCGTAGGAAGCTTTGCAGTGATCATTCCA
GTGCGGCTTCTCTTTGCTACCAAAGGCTATGTCGTTCACTTTGTACCATGGGGCCACACAGACACTTACAAAGCCATTAC
TTACAATTTTGTGCTTAGAGAAACACGTACAGTGTTCCAACAGAATGATGTGAAGATTTCAGACAGCACACATGTGTTTA
CCACGTCTTAGCATTTACGCTAAGACAAAATCCCTGTCAATCCATTGCACTTCGCAGACCCTGAAGGCTATCTCCATCTA
ATGGGCTTTGACGGAACACTGACTTTTGAGACAGAAGAAGGCGGTGAAGACTAGCAGCTTAAGGAG

Alignment

ORF - retro_ogar_2366 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.13 %
• Parental protein coverage: 92.16 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  TALWAATALRGPRETVPRAASFSG-LSRPVGGGS-AGLRGAAPLLRRPRRAQIPVFW-EGCVRC-LHTQL
          ..LWAA....GPRE.V....S....LS.....G...GL..A.PLL..P..AQI.V...EGCV....HTQ.
Retrocopy SVLWAASEFQGPREAVSQVTSAAD<LSQLLAAGA<TGLCRAVPLLWHPG*AQIHVLG>EGCVPS<WHTQF

Parental  DQSDDGRLIYTGNLARAVFGVKCFSYTTSLISFVLVPYIFTQDINGLVSLPAKIFFYGIIGSFAFITPVL
          DQS.D.RLI..GNLA..VFGVK.FSY.TS.IS.....YIF....N..VSLP..I.FYGI.GSFA.I.PV.
Retrocopy DQSEDRRLIHMGNLAQTVFGVKYFSYSTSMISLAFLLYIFASNNNIFVSLPLQILFYGIVGSFAVIIPVR

Parental  LHFITKSYVIR-LYHEAT-TDTYKAITYNFVLRETSTVFHQNDVIVPDKTYLF-TTFCAKTKSLLVNPLH
          L.F.TK.YV...LYH.AT.TDTYKAITYNFVLRET.TVF.QNDV...D.T..F.T..........VNPLH
Retrocopy LLFATKGYVVH>LYHGAT<TDTYKAITYNFVLRETRTVFQQNDVKISDSTHVFTTS*HLR*DKIPVNPLH

Parental  FPELEDYLHLMGYDRTFSFDAKEIAEEFKKEE
          F...E.YLHLMG.D.T..F...E..E.....E
Retrocopy FADPEGYLHLMGFDGTLTFETEEGGED*QLKE

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_2366 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000015908	1 retrocopy	retro_mluc_496,
Otolemur garnettii	ENSOGAG00000012823	1 retrocopy	retro_ogar_2366 ,