RetrogeneDB ID: retro_ogar_384

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873520.1:32468143..32468584(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000030871
• Aliases: None
• Description: None

Sequence

>retro_ogar_384
GGCCAGGAATCCAGGCAGCAGGAGCTGGCCCCCAAGGCCACCATTCAGGCTGCAAAAGTCTGGCAACATGGGTTGACTTT
CCACCGCAACTAGTTCACCCCACTGAAGCTACAGGAGCTGGAGAGCCTTTTCCAGTGCACTCAGTACCCCATGGGTCTGT
GTGAAAGGATCTTGCAAGATGCTTTGGTGTGACTGTCTATAGAGTGCAGGTTTGGTTTAAGAATAGGAGAGCAAGGTGGA
AAAGAATGCCAGAGGGCATTAAGTTTCAGAAATAAGCTCCCCTTGGCTCTGGGCCACTCTGTCATGATGGTTGCAGGTGG
CCTGCCTCCTGTCATGCTTACCCAGGATCAGGATGGGAGATTGGTTCTTCTGCAGCCAATACCCCTGGGGCTGCCAATAG
TGCTCCCAACACATCCTCATCTGTTCATACCTCCTCTGCCC

Alignment

ORF - retro_ogar_384 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.35 %
• Parental protein coverage: 63.48 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GEEFGELEQFPGAA-GAGNPGQRMHPFRRPAFTPPQVQELENIFQRIQYP-DGSMRKDLARRLGVTENRV
          G.E....E..P.A...A....Q....F.R..FTP...QELE..FQ..QYP..GS..KDLAR..GVT..RV
Retrocopy GQESRQQELAPKATIQAAKVWQHGLTFHRN*FTPLKLQELESLFQCTQYP<HGSV*KDLARCFGVTVYRV

Parental  QVWFKNRRARWRRH-QRASVFRSMPYVDVGHSFMMSPSVPPPVMLTHDHEGRYLLLQPAPMLPPIMPPAY
          QVWFKNRRARW.R..QRA..FR.......GHS.MM.....PPVMLT.D..GR..LLQP.P...PI..P..
Retrocopy QVWFKNRRARWKRM>QRALSFRNKLPLALGHSVMMVAGGLPPVMLTQDQDGRLVLLQPIPLGLPIVLPTH

Parental  PPLFMPPMP
          P.LF.PP.P
Retrocopy PHLFIPPLP

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_384 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
Otolemur garnettii	ENSOGAG00000030871	2 retrocopies	retro_ogar_306, retro_ogar_384 ,
Otolemur garnettii	ENSOGAG00000030942	1 retrocopy	retro_ogar_337,
Ictidomys tridecemlineatus	ENSSTOG00000005297	1 retrocopy	retro_itri_735,