RetrogeneDB ID: retro_ogar_2623

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873640.1:4878986..4879421(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP5A1
• Ensembl ID: ENSOGAG00000026684
• Aliases: None
• Description: ATP synthase, H+ transporting, mitochondrial F1 complex, alpha subunit 1, cardiac muscle [Source:HGNC Symbol;Acc:823]

Sequence

>retro_ogar_2623
ATGCTGTCTGTGAGCATAGGTGCGACTGTGGACGGCACCCTCCCTTGGTGGGCGGGGCTGGTCTCCAAAAATGCTTTGGG
TTCATCTTTCATTGCTGCAAGGAACCTCCATGCCTCTCACACTCATCTTCAGAAGACTGGCACTGCCGGGATGTCATCTA
TTCTTGAAGAGCGTATTCTTGGAGCCGATACCTTTGTTGACCTTGAGGAGACTGGGCGTGTCTTAAGTATTGGTGAGGGT
ATTGCCGGAGTACGTGGGCGGAGGAATGTTCAAGCAGAAGAAATGGTAGAATTTTCTTCAGGCTTAAAGAGTATGTGTCT
GAACTTGGAAGTTGACAATGTTGGTGTTGTTGTGTTTGGAAATGATAAGTGAGATAAGGAAGGAATTAAGGAAGGAGATA
TTGGGAAGAGGACAGGAGCCATCGTGGATGTTCCA

Alignment

ORF - retro_ogar_2623 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.76 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLSVRVAAAVARTLPRRAGLVSRNALGSSFIAARNLHASHTHLQKTGTAEMSSILEERILGADTSVDLEE
          MLSV...A.V..TLP..AGLVS.NALGSSFIAARNLHASHTHLQKTGTA.MSSILEERILGADT.VDLEE
Retrocopy MLSVSIGATVDGTLPWWAGLVSKNALGSSFIAARNLHASHTHLQKTGTAGMSSILEERILGADTFVDLEE

Parental  TGRVLSIGDGIARVHGLRNVQAEEMVEFSSGLKGMSLNLEPDNVGVVVFGNDKLIKEG----DIVKRTGA
          TGRVLSIG.GIA.V.G.RNVQAEEMVEFSSGLK.M.LNLE.DNVGVVVFGNDK..KEG....DI.KRTGA
Retrocopy TGRVLSIGEGIAGVRGRRNVQAEEMVEFSSGLKSMCLNLEVDNVGVVVFGNDK*DKEGIKEGDIGKRTGA

Parental  IVDVP
          IVDVP
Retrocopy IVDVP

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_2623 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000017648	2 retrocopies	retro_cfam_1483, retro_cfam_516,
Meleagris gallopavo	ENSMGAG00000009963	1 retrocopy	retro_mgal_14,
Macaca mulatta	ENSMMUG00000003570	1 retrocopy	retro_mmul_1208,
Mustela putorius furo	ENSMPUG00000000923	1 retrocopy	retro_mputfur_601,
Otolemur garnettii	ENSOGAG00000026684	1 retrocopy	retro_ogar_2623 ,
Sarcophilus harrisii	ENSSHAG00000017177	1 retrocopy	retro_shar_109,