RetrogeneDB ID: retro_ogar_1366

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873544.1:10610844..10611662(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000024897
• Aliases: None
• Description: None

Sequence

>retro_ogar_1366
CTGGCTCGAGACTTCACGGCTGCAGGCATCCTGTCGGCTCACAAGATGACGGCCAGCTCCCCAGAAACGGACCTGCCTTC
AGGTCTGCCCTCAGGAAGACGAGTGTGAACCGCCCTCTGACTCGAAGCAACAAGGACACAGTGAGGCACAGTGACATCCT
GTTCCTGACTGTGAAGCCACATATCATCCCCTTCATCATGGATGAGACTGAGCATGATGGCAAGCCAGGCCCACTGTGGT
CTCCTGCGCGGCTGGTGTCACCATCAGCTCTGTGGAAAAGAAGCAGATGGTATTCCGGTCAGCTCCCAGAGTGATTCTCT
GCATGACCCACACACCTGTGGTTGTGCGGAAGGGTGCCACAGTACATGCCACGGGTACCTATGCCCTGGTGGAGATGGGC
AGCTCCTGGAGCAGCTCAGGAGCAGTGTGGGCTTTTGCACCGAGGTGGAGGAGGACCTGACTGATGCTGTCACAGGCTGA
GTGGCAGCGGACCTGCTTACGTGTTCATGGCCCTGGATGTGTTGGCTGACAGTAGGGTGAAAATGGGCTTGCTGTGGCAC
CTGGCAGTCCGATTGGGGGCCCAAGACTTATTGGGTGCTGACAAGATGCTGCTGGACTGAGAGCAGCACCCAGGCCAGCT
CAAGGACAATCTCTGCTCCCATGGGGGGGCCACCATCCATGCCCTGCACTTTCTAGAGAGTGGGGGCTTCCGCTCTCTGC
TCATCAATGCAGTTGAGGCCTCCTTTATCAGATCATGAGAGCTGCAGTCCATGGCTGACCAAGAAAAGATCTCCCCAGCT
CTCCTTAAGAAGACCCTC

Alignment

ORF - retro_ogar_1366 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.65 %
• Parental protein coverage: 85. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  LARGFTAAGIVSAHKIMASSPEMDLPTV-SALRKMGVN--LTRSNKETVRHSDVLFLTVKPHIIPFILDE
          LAR.FTAAGI.SAHK..ASSPE.DLP...SALRK..VN..LTRSNK.TVRHSD.LFLTVKPHIIPFI.DE
Retrocopy LARDFTAAGILSAHKMTASSPETDLPSG<SALRKTSVNRPLTRSNKDTVRHSDILFLTVKPHIIPFIMDE

Parental  IGVDV-QARHIVVSCAAGVTISSVEKKLMAFQSAPKVIRCMTNTPVVVREGATVYATGTYALVE-DGQLL
          ...D..QAR..VVSCAAGVTISSVEKK.M.F.SAP.VI.CMT.TPVVVR.GATV.ATGTYALVE.DGQLL
Retrocopy TEHDG<QARPTVVSCAAGVTISSVEKKQMVFRSAPRVILCMTHTPVVVRKGATVHATGTYALVE<DGQLL

Parental  EQLMSSVGFCTEVEEDLIDAVTG-LSGSGPAYAFMALDALADGGVKMGLPRRLAVRLGAQALLGAAKMLL
          EQL.SSVGFCTEVEEDL.DAVTG.LSGSGPAY.FMALD.LAD..VKMGL...LAVRLGAQ.LLGA.KMLL
Retrocopy EQLRSSVGFCTEVEEDLTDAVTG<LSGSGPAYVFMALDVLADSRVKMGLLWHLAVRLGAQDLLGADKMLL

Parental  DSEQHPGQLKDNVCSPGGATIHALHFLESGGFRSLLIKAVEASCIRTRELQSMADQEKISPAALKKTL
          D.EQHPGQLKDN.CS.GGATIHALHFLESGGFRSLLI.AVEAS.IR..ELQSMADQEKISPA.LKKTL
Retrocopy D*EQHPGQLKDNLCSHGGATIHALHFLESGGFRSLLINAVEASFIRS*ELQSMADQEKISPALLKKTL

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_1366 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000002110	1 retrocopy	retro_lafr_72,
Macaca mulatta	ENSMMUG00000011434	1 retrocopy	retro_mmul_258,
Otolemur garnettii	ENSOGAG00000024897	2 retrocopies	retro_ogar_1366 , retro_ogar_1521,