RetrogeneDB ID: retro_ogar_449

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873521.1:24669794..24670397(-)
• Located in intron of: ENSOGAG00000001635

Retrocopy information

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

Parental gene information

• Parental gene symbol: RASSF3
• Ensembl ID: ENSOGAG00000016553
• Aliases: None
• Description: Ras association (RalGDS/AF-6) domain family member 3 [Source:HGNC Symbol;Acc:14271]

Sequence

>retro_ogar_449
GATGTGGAGAAAGAGAAGGAAACCCACAATTACCTCAGCAAAGAGGACATCAAAGAGAAAGTTCATAAATACAATTTAGC
AGTCACGGACAAACTGAAGATGACCTTGAATTCCAATGGGGTTTACACGGGCTTCATCCAAGTTCAGACGGAACTCTGCG
CAGCCCCCCAGACGGCACTGAAGCCTGGAAAGCTCGCTCCCGGATGCAGCGACTGCAGGAACACGCTTCACATCAGCAGC
ACAAGCGCGGTCGGCCAAGTGACTGAGGCCCTGCTCAAGAAGTTTCTCGTGACCAAGAGCCCCTCCAGGTTTGCACTTTA
TAAGCGCTGTCCCAGAGAGGACCAAGTCTACGCCGGCAAGCTCTCAGAACCGGAACACCCGCTCTGCTTGCGTCTGGTGG
CAGGACCTAGAACAGACTCGCTTAGTTTTGTTCTTCGTGAACATGAAATTGGAGAGCGGGAAGCTTTCAGCCTTCCAGAA
CTACAGAATTTCTTGCGCATCTTGGACAAGGAGGAAGATGAGCAGCTGCAGACCCTGAGCAGGCGCTATGCAGCCTACAG
ACGCCAGCTGGAGGGGGCCCAGAGCCGGGCCTGGACTCCCGGC

Alignment

ORF - retro_ogar_449 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.16 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DVEKEKETHNYLSKEEIKEKVHKYNLAVTDKLKMTLNSNGVYTGFIKVQMELCAPPQTSLKPGKLAPGCS
          DVEKEKETHNYLSKE.IKEKVHKYNLAVTDKLKMTLNSNGVYTGFI.VQ.ELCA.PQT.LKPGKLAPGCS
Retrocopy DVEKEKETHNYLSKEDIKEKVHKYNLAVTDKLKMTLNSNGVYTGFIQVQTELCAAPQTALKPGKLAPGCS

Parental  DCMNTLHISSTNTVGEVIEALLKKFLVTESPSKFALYKRCHREDQVYACKLSEREHPLYLRLVAGPRTDS
          DC.NTLHISST..VG.V.EALLKKFLVT.SPS.FALYKRC.REDQVYA.KLSE.EHPL.LRLVAGPRTDS
Retrocopy DCRNTLHISSTSAVGQVTEALLKKFLVTKSPSRFALYKRCPREDQVYAGKLSEPEHPLCLRLVAGPRTDS

Parental  LSFVLREHEIGEILWEAFSLPELQNFLRILDKEEDEQLQTLRRRYAAYRRELEGALSRAWTPG
          LSFVLREHEIGE...EAFSLPELQNFLRILDKEEDEQLQTL.RRYAAYRR.LEGA.SRAWTPG
Retrocopy LSFVLREHEIGE--REAFSLPELQNFLRILDKEEDEQLQTLSRRYAAYRRQLEGAQSRAWTPG

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_449 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000009170	1 retrocopy	retro_mluc_2315,
Oryctolagus cuniculus	ENSOCUG00000022833	1 retrocopy	retro_ocun_72,
Otolemur garnettii	ENSOGAG00000016553	1 retrocopy	retro_ogar_449 ,