RetrogeneDB ID: retro_ogar_2280

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873608.1:4576443..4577039(-)
• Located in intron of: ENSOGAG00000015785

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000002298
• Aliases: None
• Description: None

Sequence

>retro_ogar_2280
AGCAAAAGCACAAAATCTGGGGAGGACCTAGCAGTTCATGTTCTCATGATGGAAGCACAAAGCAACAACTTCAAGGAGTG
TGGCCATCCCTCCTGCTCGCCCTAAAGGCAGCTAACTTCATGACTATGGACACGGAGCTAAGTGGGCTTAAGGACTGGAA
GAGTTTGCTGAACCAGTACATAGAGGAACATTACAAGACTGTGTGTTATACTGTAAGAATCTGTTCCATCCTCTCCCTGA
GTCTTGCCTGCTTCAAGCAGCAGCTAGACAAGGAGAAACATTCCTACCTGGTTTGGGTATTCAGTCTCACCTGTTGTGCA
TGGAGGAGTATGTCATAAAACCAAAGTCTCTACAGTTCCTGTTAGAGCATAGGTTTCAACTTCAAACAGCAGTATGTCCA
GGGTATCCCCTACCATCAAGGCAATGACAAGGGTGTTGAGAATGAGAGCCTGTCACTACAGACACTGTCCCTGAAGCTGA
TCTAGGCCCTCTTGCCCCTAGTGCTACACATGGACTTATGTGACTTGGTGTTCCTATACTAGAACTTCTATGCACACCTC
CCATATAGTCTGGGAATCTTCACCGCTGACATGTGT

Alignment

ORF - retro_ogar_2280 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.28 %
• Parental protein coverage: 90.87 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SKSTKSGEDLAVQVPVVDVQSNNFKE-MWPSLLLAIKTANFVAVDTELSGLGDRKSLLNQCIEERYKAVC
          SKSTKSGEDLAV.V.....QSNNFKE..WPSLLLA.K.ANF...DTELSGL.D.KSLLNQ.IEE.YK.VC
Retrocopy SKSTKSGEDLAVHVLMMEAQSNNFKE<VWPSLLLALKAANFMTMDTELSGLKDWKSLLNQYIEEHYKTVC

Parental  HAARTRSILSLGLACFKQQLDKGEHSYLAQVFNLT-LLCMEEYVIEPKSVQFLVQH-GFNFNQQYAQGIP
          ...R..SILSL.LACFKQQLDK..HSYL..VF.LT.LLCMEEYVI.PKS.QFL..H.GFNF.QQY.QGIP
Retrocopy YTVRICSILSLSLACFKQQLDKEKHSYLVWVFSLT<LLCMEEYVIKPKSLQFLLEH>GFNFKQQYVQGIP

Parental  YHKGNDKGDESQSLSVRTLFLELIRARRPLVLHNGLIDLVFLYQNFYAHLPDNLGTFTADLC
          YH.GNDKG.E..SLS..TL.L.LI.A..PLVLH..L.DLVFLY.NFYAHLP..LG.FTAD.C
Retrocopy YHQGNDKGVENESLSLQTLSLKLI*ALLPLVLHMDLCDLVFLY*NFYAHLPYSLGIFTADMC

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_2280 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 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000013614	1 retrocopy	retro_mmur_1425,
Otolemur garnettii	ENSOGAG00000002298	3 retrocopies	retro_ogar_2153, retro_ogar_2280 , retro_ogar_3176,