RetrogeneDB ID: retro_ogar_1796

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873566.1:3097173..3097560(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TGIF2-C20orf24
• Ensembl ID: ENSOGAG00000000891
• Aliases: None
• Description: TGIF2-C20orf24 readthrough [Source:HGNC Symbol;Acc:44664]

Sequence

>retro_ogar_1796
ATGAGCGGCGGGCGGCGGAAAGAGGAGCCACTTCAGCCTCAGCTGGCCGACCCAGGCCCTGAAAGTCTCCGTCTGGAGCA
AGGTGCTGCGGAGCAACGCGGCCTGGGAGGACAAGGATGAATTTTTAGATGTGAGCTACTGGTTCAGACAGATCATTGCT
GTGGTCCTGGGTGTCATTTGGGGAGTTTTGCCATTACGAGGTTTCTTGGGAATAGCAGGATTCTGCCTAATCAATGCAGG
AGTGCAGTACCTCTACTTCAGCAACTACCTACAGATCAATGAGGAAGATATGGCGGCACATGGGGGCTCACAAAAGAGAG
ATTTGTGACGTCTTTTGCCTTGTTCATGGTCATTTGGATCATCTTTTATCCTGCCATTCACTATGAC

Alignment

ORF - retro_ogar_1796 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.31 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MSGGRRKEEPPQPQLANG-ALKVSVWSKVLRSDAAWEDKDEFLDVIYWFRQIIAVVLGVIWGVLPLRGFL
          MSGGRRKEEP.QPQLA...ALKVSVWSKVLRS.AAWEDKDEFLDV.YWFRQIIAVVLGVIWGVLPLRGFL
Retrocopy MSGGRRKEEPLQPQLADP>ALKVSVWSKVLRSNAAWEDKDEFLDVSYWFRQIIAVVLGVIWGVLPLRGFL

Parental  GIAGFCLINAGVLYLYFSNYLQIDEEE-YGGTWELTKEGFMTSFALFMVIWIIFYTAIHYD
          GIAGFCLINAGV.YLYFSNYLQI.EE..YGGTW.LTKE.F.TSFALFMVIWIIFY.AIHYD
Retrocopy GIAGFCLINAGVQYLYFSNYLQINEED<YGGTWGLTKERFVTSFALFMVIWIIFYPAIHYD

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_1796 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000021805	1 retrocopy	retro_btau_697,
Cavia porcellus	ENSCPOG00000011435	2 retrocopies	retro_cpor_1090, retro_cpor_1382,
Mustela putorius furo	ENSMPUG00000017777	1 retrocopy	retro_mputfur_1460,
Otolemur garnettii	ENSOGAG00000000891	1 retrocopy	retro_ogar_1796 ,
Rattus norvegicus	ENSRNOG00000020317	1 retrocopy	retro_rnor_2185,