RetrogeneDB ID: retro_ogar_345

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873520.1:39236894..39237316(+)
• Located in intron of: ENSOGAG00000010845

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000003726
• Aliases: None
• Description: None

Sequence

>retro_ogar_345
ATGGCGGGGAAGCCCAAGCTTCACTACTACGATGGACAAGGCAGGATAGAGTCCATTCAGTGGCTCTTGGCTGCAGCTGG
GGTAGAGTTTGAAGAGATATTTTTACAATGGACAGAAGATTTGGATAAGTTAAAGAATGGAGTTTGATGTTCCCGCAAGT
GCCCATGGTGGAGACTGACGGGATGAAGCTGGTGCAGATGAGAGCCATTCTCAACTACATCACCAGCAAACACAACCTCT
ATGGGAAAGATATAAAGGAGAGAGCCCTGATTGAAATGTATGTAGAAGGCATGGCAGACTAGAACGAAAAGATTATTATG
CTATTCATCCATCCCTGCGAGGAAAAAGATGCCCTGCTTGCCTTGCTCAAACAGAAAACAACAGATCGCTATTTCCCTGC
CTTTGAAAAAGTGTTAAAGAGC

Alignment

ORF - retro_ogar_345 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.32 %
• Parental protein coverage: 63.96 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAGKPKLHYYDGRGRMESIRWLLAAAGVEFEEIFLQSPEDLDKLRNDGSLMFQQVPMVEIDG-MKLVQTR
          MAGKPKLHYYDG.GR.ESI.WLLAAAGVEFEEIFLQ..EDLDKL.N.G.......P.....G.MKLVQ.R
Retrocopy MAGKPKLHYYDGQGRIESIQWLLAAAGVEFEEIFLQWTEDLDKLKN-GV*CSRKCPWWRLTG<MKLVQMR

Parental  AILNYIASKHNLYGKDIKERALIDMYVEGMADWNEMFIMLFVHPREEQDAQLALLKQKTTDRYLPAFEKV
          AILNYI.SKHNLYGKDIKERALI.MYVEGMAD.NE..IMLF.HP.EE.DA.LALLKQKTTDRY.PAFEKV
Retrocopy AILNYITSKHNLYGKDIKERALIEMYVEGMAD*NEKIIMLFIHPCEEKDALLALLKQKTTDRYFPAFEKV

Parental  LKS
          LKS
Retrocopy LKS

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_345 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011287	1 retrocopy	retro_cjac_4055,
Dasypus novemcinctus	ENSDNOG00000009819	1 retrocopy	retro_dnov_2390,
Homo sapiens	ENSG00000182793	1 retrocopy	retro_hsap_2366,
Gorilla gorilla	ENSGGOG00000027587	1 retrocopy	retro_ggor_1797,
Microcebus murinus	ENSMICG00000002208	1 retrocopy	retro_mmur_350,
Otolemur garnettii	ENSOGAG00000003726	1 retrocopy	retro_ogar_345 ,
Otolemur garnettii	ENSOGAG00000031992	1 retrocopy	retro_ogar_2737,
Pan troglodytes	ENSPTRG00000032453	1 retrocopy	retro_ptro_1732,
Tupaia belangeri	ENSTBEG00000001413	1 retrocopy	retro_tbel_2120,