RetrogeneDB ID: retro_ogar_2473

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873626.1:5797922..5798659(+)
• Located in intron of: ENSOGAG00000032192

Retrocopy information

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

Parental gene information

• Parental gene symbol: RUVBL2
• Ensembl ID: ENSOGAG00000007519
• Aliases: None
• Description: RuvB-like 2 (E. coli) [Source:HGNC Symbol;Acc:10475]

Sequence

>retro_ogar_2473
ACAGTGACCAAAGTCCCGGAGATCTGTGATGTCACAAGGATTGAACGTATTGGTGCTCGTTCCCACATCCGGGGACTGGG
GCTGGATGATGCCTTGGAGCCTCTGCAGGCTTCCCAAGGCATGGTGGGTCAGCTGGTGGCACGACGGGCAGCCGGTGTGG
TGCTGGAGATGATCCTGGAAGGGAAGATTGCTGGGCGGGCAGTTCTCATTGCTGGCCAGCCAGGCACAGGGAAGACAGCC
ATTGCTCTGGGCATGGCGCAGGCCTGGGCCCTGACACCCCATTTACAGCCATTGCTGGCAGTGAGATCTCCCTGGAGATG
AGCAAGACTGAGGCACTGACGCAGGCCTTCCGGAGATCCATTGGTGTTCGCATCAAGGAGGAGACCGAGATCATTGAAGG
AGAGGTGGTGGAGATCCAGATTGATCCACCGGCCACAGGGATGGGCTCCGGGGTGAGCAGGTTGACCCTTAAGACCACAG
AGATGGAAACCGTCTACGATCTGGGCACCAAGATGATTGAATCTCTGACCAAAGACAAGGTCCAGGCCGGGGATGTGATC
ACTATTGACAAGGCAACAGGCAAGGTCTCTAAGCTGGGCTGCTCCTTCACACGTGCTTGTGACTATGACCCAATGGGCTC
CCAGAGCAAGTTCATGCAGTGCCCAGATGGGGAGCTCCAGAAACGCAAGGAGGTGGTGCACACCGTGTCCCTGCACGAGA
TTGATGTCATTAACTCT

Alignment

ORF - retro_ogar_2473 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.53 %
• Parental protein coverage: 53.81 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TATKVPEIRDVTRIERIGAHSHIRGLGLDDALEPRQASQGMVGQLAARRAAGVVLEMIREGKIAGRAVLI
          T.TKVPEI.DVTRIERIGA.SHIRGLGLDDALEP.QASQGMVGQL.ARRAAGVVLEMI.EGKIAGRAVLI
Retrocopy TVTKVPEICDVTRIERIGARSHIRGLGLDDALEPLQASQGMVGQLVARRAAGVVLEMILEGKIAGRAVLI

Parental  AGQPGTGKTAIAMGMAQA-LGPDTPFTAIAGSEIFSLEMSKTEALTQAFRRSIGVRIKEETEIIEGEVVE
          AGQPGTGKTAIA.GMAQA.LGPDTPFTAIAGSEI.SLEMSKTEALTQAFRRSIGVRIKEETEIIEGEVVE
Retrocopy AGQPGTGKTAIALGMAQA<LGPDTPFTAIAGSEI-SLEMSKTEALTQAFRRSIGVRIKEETEIIEGEVVE

Parental  IQIDRPATGTGSKVGKLTLKTTEMETIYDLGTKMIESLTKDKVQAGDVITIDKATGKISKLGRSFTRARD
          IQID.PATG.GS.V..LTLKTTEMET.YDLGTKMIESLTKDKVQAGDVITIDKATGK.SKLG.SFTRA.D
Retrocopy IQIDPPATGMGSGVSRLTLKTTEMETVYDLGTKMIESLTKDKVQAGDVITIDKATGKVSKLGCSFTRACD

Parental  YDAMGSQTKFVQCPDGELQKRKEVVHTVSLHEIDVINS
          YD.MGSQ.KF.QCPDGELQKRKEVVHTVSLHEIDVINS
Retrocopy YDPMGSQSKFMQCPDGELQKRKEVVHTVSLHEIDVINS

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_2473 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000000222	2 retrocopies	retro_cjac_329, retro_cjac_4119,
Homo sapiens	ENSG00000183207	1 retrocopy	retro_hsap_4755,
Gorilla gorilla	ENSGGOG00000009245	1 retrocopy	retro_ggor_2961,
Macropus eugenii	ENSMEUG00000000069	1 retrocopy	retro_meug_2099,
Macaca mulatta	ENSMMUG00000003915	1 retrocopy	retro_mmul_2536,
Nomascus leucogenys	ENSNLEG00000004769	1 retrocopy	retro_nleu_1251,
Otolemur garnettii	ENSOGAG00000007519	2 retrocopies	retro_ogar_2473 , retro_ogar_3246,
Pongo abelii	ENSPPYG00000010225	1 retrocopy	retro_pabe_3701,
Pan troglodytes	ENSPTRG00000011270	1 retrocopy	retro_ptro_3168,