RetrogeneDB ID: retro_ogar_441

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873521.1:8964552..8964891(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TRUB2
• Ensembl ID: ENSOGAG00000003511
• Aliases: None
• Description: TruB pseudouridine (psi) synthase homolog 2 (E. coli) [Source:HGNC Symbol;Acc:17170]

Sequence

>retro_ogar_441
ATGATGTCCGCTGGCCTGGCACGGCTGAGTGGGCTCTTCATGGTCTATAAATCCCTGGGGTTAATATGGTAGCACCTGTG
GGATACAATAAAGCTACAACTTCTGAAGGGTCTCAATGCTAAGAAACCTCTGGCCCCTGAACAGTGTGTTCGATTCTTAC
TGGGCCCCACAGAAGGCAGTGATAAGAAGAAGCTGACACTCACAGCCACCAGTGTGCCCACCCTCACTAGCCATCCACTG
GTACGTGGACCGGCATTCACTAGTATGAAGGTTGGTGTGAGACACCATCTGGATGCCCAGGCTTCCGGGGTGCTTGTGTT
CGGTGTGGGACAGGGATGC

Alignment

ORF - retro_ogar_441 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.3 %
• Parental protein coverage: 68.9 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRSAALARLNGLFAVYKPPGLKWKHLRDTIELQLLKGLNAKKPPAPEQRVRFLLGPIEGSEEKELTLTAT
          M.SA.LARL.GLF.VYK..GL.W.HL.DTI.LQLLKGLNAKKP.APEQ.VRFLLGP.EGS..K.LTLTAT
Retrocopy MMSAGLARLSGLFMVYKSLGLIW*HLWDTIKLQLLKGLNAKKPLAPEQCVRFLLGPTEGSDKKKLTLTAT

Parental  SVPTLTSHPLVRGPAFTSLKVGVGHRLDAQASGVLVFGVGRGC
          SVPTLTSHPLVRGPAFTS.KVGV.H.LDAQASGVLVFGVG.GC
Retrocopy SVPTLTSHPLVRGPAFTSMKVGVRHHLDAQASGVLVFGVGQGC

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_441 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000009114	1 retrocopy	retro_etel_1975,
Otolemur garnettii	ENSOGAG00000003511	2 retrocopies	retro_ogar_440, retro_ogar_441 ,
Tupaia belangeri	ENSTBEG00000000586	1 retrocopy	retro_tbel_4734,