RetrogeneDB ID: retro_ogar_212

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873579.1:2335640..2336876(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000026206
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: EIF4A3
• Ensembl ID: ENSOGAG00000007495
• Aliases: None
• Description: eukaryotic translation initiation factor 4A3 [Source:HGNC Symbol;Acc:18683]

Sequence

>retro_ogar_212
ATGGCGGCTACAGCCACGATGGCTACCTCGGGCTCGGCACGGAAGCGGCTGCTCAAAGAGGAAGACATGACGAAAGTGGA
ATTTGAGACCAGCGAGGAGGTGGACGTGACCCCCACGTTCGACACCATGGGCCTGCGGGAGGACCTGCTGCGCGGCATCT
ACGCCTACGGTTTTGAAAAACCGTCAGCAATCCAGCAGCGAGCCATCAAACAGATCATAAAAGGGCGAGACGTCATTGCA
CAGTCTCAGTTTGGCACAGGCAAAACAGCCACTTTTAGCATCTCCGTCCTTCAGTGCTTGGACATACAGGTTCGTGAAAC
CCAAGCTTTGATCTTGGCTCCCACGAGAGAGTTGGCTGTACAGATCCAGAAGGGCCTGCTTGCTCTTGGTGACTACATGA
ACGTCCAGTGCCATGCCTGCATCGGGGGCACCAATGTGGGTGAGGACATCAGGAAGCTGGATTATGGACAGCATGTTGTG
GCAGGCACACCAGGGCGTGTCTTCGACATGATTCGTCGGAGAAGTTTAAGGACACGAGCTATCAAGATGTTAGTTTTAGA
TGAGGCTGATGAAATGTTGAATAAAGGTTTTAAGGAGCAGATTTATGACGTGTACAGGTACTTGCCTCCAGCCACGCAGG
TGGTCCTCATCAGTGCCACGCTGCCCCATGAGATCCTGGAGATGACCAACAAGTTCATGACGGACCCCATCCGCATCCTC
GTGAAGCGTGATGAACTGACCTTGGAAGGTATCAAACAGTTTTTTGTGGCAGTGGAAAGAGAAGAGTGGAAGTTTGACAC
CCTGTGTGACCTCTACGACACACTGACCATCACTCAGGCAGTCATCTTCTGCAACACTAAAAGGAAGGTTGACTGGCTAA
CGGAGAAGATGAGAGAGGCCAATTTCACTGTGTCCTCCATGCATGGAGACATGCCCCAGAAGGAGCGTGAGTCTATCATG
AAGGAGTTCCGCTCAGGTGCCAGCCGAGTGCTCATTTCGACCGACGTCTGGGCCCAGGGCTTGGATGTCCCTCAGGTGTC
GCTCATCATTAACTACGACCTGCCCAACAACAGAGAGCTGTATATTCACAGAATTGGGAGGTCGGGTCGGTATGGCCGTA
AGGGCGTGGCCATCAACTTTGTGAAAAACGACGACATCCGCATCCTGAGGGACATCGAACAGTACTACTCCACCCAGATC
GATGAGATGCCCATGAACGTTGCCGATCTGATCTGA

Alignment

ORF - retro_ogar_212 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.51 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAATATMATSGSARKRLLKEEDMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIK
          MAATATMATSGSARKRLLKEEDMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIK
Retrocopy MAATATMATSGSARKRLLKEEDMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIK

Parental  QIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHAC
          QIIKGRDVIAQSQ.GTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHAC
Retrocopy QIIKGRDVIAQSQFGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHAC

Parental  IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP
          IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP
Retrocopy IGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPP

Parental  ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQA
          ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQA
Retrocopy ATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQA

Parental  VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLII
          VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWA.GLDVPQVSLII
Retrocopy VIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWAQGLDVPQVSLII

Parental  NYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI
          NYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI
Retrocopy NYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI

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_212 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000009136	2 retrocopies	retro_mmur_444, retro_mmur_50,
Myotis lucifugus	ENSMLUG00000009585	1 retrocopy	retro_mluc_65,
Macaca mulatta	ENSMMUG00000009590	1 retrocopy	retro_mmul_851,
Monodelphis domestica	ENSMODG00000002190	1 retrocopy	retro_mdom_202,
Mus musculus	ENSMUSG00000025580	2 retrocopies	retro_mmus_2752, retro_mmus_70,
Ornithorhynchus anatinus	ENSOANG00000000334	1 retrocopy	retro_oana_47,
Otolemur garnettii	ENSOGAG00000007495	1 retrocopy	retro_ogar_212 ,
Otolemur garnettii	ENSOGAG00000008132	2 retrocopies	retro_ogar_1375, retro_ogar_1862,
Otolemur garnettii	ENSOGAG00000010729	2 retrocopies	retro_ogar_2830, retro_ogar_943,