RetrogeneDB ID: retro_ogar_3061

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873706.1:2107509..2107720(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FXYD6-FXYD2
• Ensembl ID: ENSOGAG00000015394
• Aliases: None
• Description: FXYD6-FXYD2 readthrough [Source:HGNC Symbol;Acc:39978]

Sequence

>retro_ogar_3061
ATGGACCCTTTTCATTGTCACTACCAGACACTGAGGATTGGGGGACTGGTGTTTGTGTGGTCCTCTTCTCGCTTGGAGTC
CTTCTATCCTAAGTCACAAGTGCAGTTTCAATTAGGAGTTGCAGGCTCCAGGAGAAGCCCAGGTAAGAACCTCATCACCA
CAACAGAGTCCCAGAAAGCAGAGAGCTGAAGTGCAGCCCTCAGGTGGGAAG

Alignment

ORF - retro_ogar_3061 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68. %
• Parental protein coverage: 67.65 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MDPFHYDYQTLRIGGLVFA-VVLFSVGILL-ILSRRCKCSFNQKPRAPGDEE----APQQSPRKRRTEVQ
          MDPFH..YQTLRIGGLVF..VVLFS.G.LL.ILS...KCSFN....APG........PQQSPRK.R.EVQ
Retrocopy MDPFHCHYQTLRIGGLVFV<VVLFSLGVLL<ILSH--KCSFN*ELQAPGEAQVRTSSPQQSPRKQRAEVQ

Parental  PSGGK
          PSGGK
Retrocopy PSGGK

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_3061 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 7 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000013044	1 retrocopy	retro_cjac_2098,
Erinaceus europaeus	ENSEEUG00000011989	1 retrocopy	retro_eeur_382,
Homo sapiens	ENSG00000137726	2 retrocopies	retro_hsap_562, retro_hsap_662,
Gorilla gorilla	ENSGGOG00000006473	2 retrocopies	retro_ggor_507, retro_ggor_574,
Otolemur garnettii	ENSOGAG00000014401	1 retrocopy	retro_ogar_247,
Otolemur garnettii	ENSOGAG00000015394	2 retrocopies	retro_ogar_2451, retro_ogar_3061 ,
Pongo abelii	ENSPPYG00000003918	3 retrocopies	retro_pabe_583, retro_pabe_644, retro_pabe_648,