RetrogeneDB ID: retro_ogar_2299

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873610.1:3656574..3656999(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NOP16
• Ensembl ID: ENSOGAG00000000824
• Aliases: None
• Description: NOP16 nucleolar protein [Source:HGNC Symbol;Acc:26934]

Sequence

>retro_ogar_2299
ACCCGGAGGCAGAAGTTCAGTTACAATGTCAGCTGAAAGCATCTGAACCCAAATGCTCAATGGAAGGAGGTGCTGCAGAT
AGAGTCCTCACATGTAAGACATGCTTGGGACCATGCTAAATTGGTGCAGCAGAACCTGGCCCAGATGGGGTTGGCTATGG
AACACAATAAGGTGTTGCCCTTACCTAAGAGAATGGTGAAGTCCCTGGAGATGAATGTAGAGGAGAGGCCTAAGGAGCTT
GTGCTGAAGCCTTATGTGCTGAATGACCTGGAGGCAGAAGCCAGCCTTCCAGAAAAAAAGAAATACCTTGTCTCTGACCT
CGTTGACTACATAAGCTACATGGTAGAGAACCATGGGGAGGACTATAAGGCCATAGCCTGAGATGAGAGAATTACAATTA
AGATACCCCAAAACAGGCTCAGCAC

Alignment

ORF - retro_ogar_2299 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.44 %
• Parental protein coverage: 80.34 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TRRQKFGYNVNRKRLNRNVRRKAAPRIECSHIRHAWDHAKSVRQNLAEMGLAMDPNKALPLRKRKVKAME
          TRRQKF.YNV..K.LN.N...K....IE.SH.RHAWDHAK.V.QNLA.MGLAM..NK.LPL.KR.VK..E
Retrocopy TRRQKFSYNVS*KHLNPNAQWKEVLQIESSHVRHAWDHAKLVQQNLAQMGLAMEHNKVLPLPKRMVKSLE

Parental  VDVEERPKELVRKPYVLNDLEAEASLPEKKGNTLSRDLIDYVRYMVENHGEDYKAMARDEK-NYYQDTPK
          ..VEERPKELV.KPYVLNDLEAEASLPEKK....S.DL.DY..YMVENHGEDYKA.A.DE..NY..DTPK
Retrocopy MNVEERPKELVLKPYVLNDLEAEASLPEKKKYLVS-DLVDYISYMVENHGEDYKAIA*DER<NYN*DTPK

Parental  QIRN
          Q...
Retrocopy QAQH

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_2299 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000016694	2 retrocopies	retro_cfam_1790, retro_cfam_1793,
Callithrix jacchus	ENSCJAG00000012315	1 retrocopy	retro_cjac_2208,
Echinops telfairi	ENSETEG00000010391	1 retrocopy	retro_etel_1329,
Mustela putorius furo	ENSMPUG00000012552	1 retrocopy	retro_mputfur_381,
Otolemur garnettii	ENSOGAG00000000824	2 retrocopies	retro_ogar_1323, retro_ogar_2299 ,
Rattus norvegicus	ENSRNOG00000017284	1 retrocopy	retro_rnor_2739,
Sus scrofa	ENSSSCG00000029577	1 retrocopy	retro_sscr_510,
Ictidomys tridecemlineatus	ENSSTOG00000004869	1 retrocopy	retro_itri_1124,