RetrogeneDB ID: retro_ogar_534

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873523.1:4380399..4381286(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL15
• Ensembl ID: ENSOGAG00000003768
• Aliases: None
• Description: mitochondrial ribosomal protein L15 [Source:HGNC Symbol;Acc:14054]

Sequence

>retro_ogar_534
ATGGCAGGTCTGGTGCAGGGCGGTGGGGCCAGGGCCCTGGATCTGCTCTGGGCCCTGCCTCGTGTAAGCCTGGCCAACTT
GAAGCTGAATCCCGGCTCCAGGAAACCAAAGAGACCACCAAGAGGTCGGAGAAGAGGTAGAAAGCTTGACAGAGGCCATA
AAGGAGAAAGGCAGAGAAGAACCCAGCCCTGTCTGGGCTTTGAGGGAGGCCAGACTCCATTTTACATCTGAATACCAAAG
TATGGGTTTAATAAAGGAAGTAACTTCAGATGCCAGTACCAGCCTCTGAGTCTCCGCAGACTGCAGTATCTTACTGACTT
GGATCGAGTTGTTTCTACTCAACCTATTGACTTAACCCAGCTTGTCAATGGGAGAGGTGTGACCATTCAGTCTCTTAAAA
GGGATTATGGTGTCCAGCTGGTGGAGGAAGGTGCTGACACCTTTAAGGCAAAAGTTAATATTGAAGTACAGTTGGCTTCA
GAACTAGCTATTGCTGCAATTGAAAACAATAGTGATGCTGTTACTACAGCCTTCTATGATCCCAGGAGTCTGGAAATCCT
ATGCAAACCTATTCCATTCTTTCTTCTTTTCAGCCTATTCCAAAACGAATGCTTCCACCTGAAGCACTGGTACCCTATTA
CATTGATGCAAAGAATCGTGGTTACCTGGCAGACCCTGCCAAATTTCCTGAAGCAAGGCTTGAACTTGCCAAGATGTATG
GTTATATTTTACCCCACATCACTAAAGATGAACTCCTCCAGATGCTCAGTGCTCAAAAGGATCCAAGGCAGGTTTTCTTT
GCTCTTGCTCCAGAATGGGTGGTGAACATGGCAGATAAGAAAATCCTAAAACCCACAGATGAGAGTCTCCTCAAGTATTA
TAGCTCC

Alignment

ORF - retro_ogar_534 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.87 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAGPLQGGGARALDLLRALPRVSLANLKPNPGSRKPERRPRGRRRGRKCGRGHKGERQRGTRPRLGFEGG
          MAG..QGGGARALDLL.ALPRVSLANLK.NPGSRKP.R.PRGRRRGRK..RGHKGERQR.T.P.LGFEGG
Retrocopy MAGLVQGGGARALDLLWALPRVSLANLKLNPGSRKPKRPPRGRRRGRKLDRGHKGERQRRTQPCLGFEGG

Parental  QTPFYIRIPKYGFNEGHSFRRQYQPLSLNRLQYLIDLGRVDPTQPIDLTQLVNGRGVTIQPLKRDYGVQL
          QTPFYI.IPKYGFN.G..FR.QYQPLSL.RLQYL.DL.RV..TQPIDLTQLVNGRGVTIQ.LKRDYGVQL
Retrocopy QTPFYI*IPKYGFNKGSNFRCQYQPLSLRRLQYLTDLDRVVSTQPIDLTQLVNGRGVTIQSLKRDYGVQL

Parental  VEEGADTFKAKVNIEVQLASELAIAAIEKNGGVVTTAFYDPRSLEILCKPIPFFL-RGQPIPKRMLPPEA
          VEEGADTFKAKVNIEVQLASELAIAAIE.N...VTTAFYDPRSLEILCKPIPFFL...QPIPKRMLPPEA
Retrocopy VEEGADTFKAKVNIEVQLASELAIAAIENNSDAVTTAFYDPRSLEILCKPIPFFL<SFQPIPKRMLPPEA

Parental  LVPYYTDAKNRGYLADPAKFPEARLELAKKYGYILPDITKDELFKMLSARKDPRQIFFGLAPGWVVNMAD
          LVPYY.DAKNRGYLADPAKFPEARLELAK.YGYILP.ITKDEL..MLSA.KDPRQ.FF.LAP.WVVNMAD
Retrocopy LVPYYIDAKNRGYLADPAKFPEARLELAKMYGYILPHITKDELLQMLSAQKDPRQVFFALAPEWVVNMAD

Parental  KKILKPTDENLLKYYSS
          KKILKPTDE.LLKYYSS
Retrocopy KKILKPTDESLLKYYSS

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_534 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 16 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001174	1 retrocopy	retro_btau_324,
Canis familiaris	ENSCAFG00000006988	2 retrocopies	retro_cfam_1573, retro_cfam_511,
Choloepus hoffmanni	ENSCHOG00000005299	3 retrocopies	retro_chof_1379, retro_chof_1719, retro_chof_746,
Callithrix jacchus	ENSCJAG00000016719	1 retrocopy	retro_cjac_2230,
Dasypus novemcinctus	ENSDNOG00000017664	1 retrocopy	retro_dnov_364,
Erinaceus europaeus	ENSEEUG00000001454	2 retrocopies	retro_eeur_128, retro_eeur_707,
Echinops telfairi	ENSETEG00000001724	1 retrocopy	retro_etel_1304,
Mustela putorius furo	ENSMPUG00000010533	1 retrocopy	retro_mputfur_149,
Mus musculus	ENSMUSG00000033845	2 retrocopies	retro_mmus_1709, retro_mmus_3534,
Ornithorhynchus anatinus	ENSOANG00000007286	1 retrocopy	retro_oana_114,
Otolemur garnettii	ENSOGAG00000003768	1 retrocopy	retro_ogar_534 ,
Ochotona princeps	ENSOPRG00000000921	2 retrocopies	retro_opri_241, retro_opri_364,
Rattus norvegicus	ENSRNOG00000008566	2 retrocopies	retro_rnor_1344, retro_rnor_2785,
Sus scrofa	ENSSSCG00000030578	1 retrocopy	retro_sscr_617,
Tarsius syrichta	ENSTSYG00000014106	1 retrocopy	retro_tsyr_37,
Tursiops truncatus	ENSTTRG00000011844	2 retrocopies	retro_ttru_1139, retro_ttru_733,