RetrogeneDB ID: retro_ogar_3335

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873782.1:174853..175480(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000005330
• Aliases: None
• Description: None

Sequence

>retro_ogar_3335
GAAAACCGCCAAGCACTGCACCCTGTGCAGTTTTACCTGACAAGCCATGGAGGCCAGCTGAAAAAAAACATGGATGAAAA
TAACAAAGGATGAGTCAACTGGAAGGATATACACATCAAATCAGAGCACTATAGTTAACTCATGAAAAAAGAAGATCTGT
TTTATCTTACATCAGATTCACCTAATGTACTGAAGGAATTAGATGAATCAAAGGCCTATGTGATTGGAGGATTAGTAGAG
TACAGCCATCACAAAGGACTCACATATAAACAAGCATCAGATTATGGAATTGATCACGCACAGCTCCCTCTTGGAAATTT
TGTGAAGATGAATAGCAGAAAAGTTCTGGCAGTTAATCATGTGTTTGAGATTATTCTGGAATACCTGGAAACCAGAGACT
GGCAAGAAGCTTTTTTTACTATCTTGCCCCAGCAGAAAGGAGCTGTTCCCACAAACAAAGCCTGTGACAGTTCTTCCCAG
GACAAACAATCTGTCAGGGTTGAAGATGGATCAGATAGTGATTCCAGTGAGGAAGAAGATAGCAGAAATGAACTAAATTC
ACCACAGGAGGAAGAAAAGCAGGATAAGGAAAATAGCACTGAATCCACAGAGAACTCTGTACCACAC

Alignment

ORF - retro_ogar_3335 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.82 %
• Parental protein coverage: 61.65 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ENRRALHPVQFYLTSHGGQLKKNMDENDKGWVNWKDIHIKSEHYSELMKKEDLVYLTSDSPNVLKELDES
          ENR.ALHPVQFYLTSHGGQL...MDEN.KG.VNWKDIHIKSEHYS.LMKKEDL.YLTSDSPNVLKELDES
Retrocopy ENRQALHPVQFYLTSHGGQLXXXMDENNKG*VNWKDIHIKSEHYS*LMKKEDLFYLTSDSPNVLKELDES

Parental  KAYVIGGLVDHNHHKGLTYKQASDYGIDHAQLPLGNFVKMNSRKVLAVNHVFEIILEYLETRDWQEAFFT
          KAYVIGGLV...HHKGLTYKQASDYGIDHAQLPLGNFVKMNSRKVLAVNHVFEIILEYLETRDWQEAFFT
Retrocopy KAYVIGGLVEYSHHKGLTYKQASDYGIDHAQLPLGNFVKMNSRKVLAVNHVFEIILEYLETRDWQEAFFT

Parental  ILPQRKGAVPTNKAYDSSSQDKQSVRVEDGSDSDSSEEEDSRNELNSPQEEGKQDKENSAESTENSVPH
          ILPQ.KGAVPTNKA.DSSSQDKQSVRVEDGSDSDSSEEEDSRNELNSPQEE.KQDKENS.ESTENSVPH
Retrocopy ILPQQKGAVPTNKACDSSSQDKQSVRVEDGSDSDSSEEEDSRNELNSPQEEEKQDKENSTESTENSVPH

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_3335 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 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001076	1 retrocopy	retro_amel_1868,
Macaca mulatta	ENSMMUG00000009090	1 retrocopy	retro_mmul_2024,
Mus musculus	ENSMUSG00000004127	3 retrocopies	retro_mmus_3007, retro_mmus_3008, retro_mmus_3368,
Oryctolagus cuniculus	ENSOCUG00000015213	1 retrocopy	retro_ocun_1482,
Otolemur garnettii	ENSOGAG00000005330	2 retrocopies	retro_ogar_2061, retro_ogar_3335 ,
Ictidomys tridecemlineatus	ENSSTOG00000005064	1 retrocopy	retro_itri_1131,