RetrogeneDB ID: retro_ogar_1736

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873563.1:10911371..10911860(+)
• Located in intron of: ENSOGAG00000015241

Retrocopy information

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

Parental gene information

• Parental gene symbol: C2orf68
• Ensembl ID: ENSOGAG00000033817
• Aliases: None
• Description: chromosome 2 open reading frame 68 [Source:HGNC Symbol;Acc:34353]

Sequence

>retro_ogar_1736
ATGGAGGCGGGGTTTGGTCCCGGTTCTGGGCTCTGCTGCAAGCCTGGCGGGCGACTGAACGTGAACCACAGCTTCGTGCA
CCATACTCGACGGAACCAGATCGCCCAGGACAACTAGGACAAGGTGAAGCAGGTGGCCAAGGAGGTGAGGAGATGACACA
CGCCCGCTCCAATGCGGCCCCGGAAGCCAGACCTGCAAGTGTACCTGCCACGACATCGAGATGCCTCTACCCACCCAGGC
AACCCAAACTATGAGTCTGGTGAAAGCAGCAGTAGTGGTCGCTCTGAGCTGGAGCCTTCTAGCCATCAGCTCTTCTGCTT
AGAATATGAGGCGGACAGTGGAGAGGTCATATCAGTTATTGTGTATCAGGACAATGACCCAGGCAGGGTGAGTGAGGAGG
TGTCTGCACACAAGCCTCTGGATCCACCCATGCAAGAGGCCCTCAAGTTGCATATCCAAGAAGAGATTGCAAAGCGCCAG
AGCCAACAT

Alignment

ORF - retro_ogar_1736 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.75 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEAGSGPGSGLCCKPGGRLDMNHGFVHHIRRNQIARDNYDKKVKQAAKEKVRRRHTPAPTRPRKPDLQVY
          MEAG.GPGSGLCCKPGGRL..NH.FVHH.RRNQIA.DN.DK.VKQ.AKE.VRR.HTPAP.RPRKPDLQVY
Retrocopy MEAGFGPGSGLCCKPGGRLNVNHSFVHHTRRNQIAQDN*DK-VKQVAKE-VRR*HTPAPMRPRKPDLQVY

Parental  LPRHRDASTHPSNPDYEESGESSSSGGSELEPSSHQLFCLEYEADSGEVTSVIVYQDDDPGRVSEEVSAH
          LPRHRDASTHP.NP.YE.SGESSSSG.SELEPSSHQLFCLEYEADSGEV.SVIVYQD.DPGRVSEEVSAH
Retrocopy LPRHRDASTHPGNPNYE-SGESSSSGRSELEPSSHQLFCLEYEADSGEVISVIVYQDNDPGRVSEEVSAH

Parental  TPLDPPMREALKLRIQEEIAKRQSRH
          .PLDPPM.EALKL.IQEEIAKRQS.H
Retrocopy KPLDPPMQEALKLHIQEEIAKRQSQH

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_1736 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 4 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004242	1 retrocopy	retro_chof_1606,
Callithrix jacchus	ENSCJAG00000019632	4 retrocopies	retro_cjac_2584, retro_cjac_2787, retro_cjac_453, retro_cjac_952,
Equus caballus	ENSECAG00000014919	1 retrocopy	retro_ecab_479,
Otolemur garnettii	ENSOGAG00000033817	1 retrocopy	retro_ogar_1736 ,