RetrogeneDB ID: retro_ogar_1509

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873550.1:1616920..1617217(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TBPL1
• Ensembl ID: ENSOGAG00000006622
• Aliases: None
• Description: TBP-like 1 [Source:HGNC Symbol;Acc:11589]

Sequence

>retro_ogar_1509
CTGCAGAAACTAGGCTTCCAGGTAATACTTACGGATTTTAAAGTTGTTAATATTTTGGCAGTATGTAACATGCCATTTGA
AATTCGTTTGCCAGAATTCACAAAGAACAACTGACCTCATGCCAGTTATGAACCTGAACTTCATCCTGCTGTGTGCTATC
CAATAAAGTCTCTAAGAGCTACATTACAGATGTTTTCAACAGGAAGTATCACAGTAACAGAGCCCAATGTAAAGGCCATT
GCTACTGCTGTGGACCAGATTTACCTATTTGCGTTTGAAAGCAGGAAAGAAATTTTA

Alignment

ORF - retro_ogar_1509 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.84 %
• Parental protein coverage: 57.56 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEAAAFGVIFTDFKVVNVLAVCNMPFEIRLPEFTKNNRPHASYEPELHPAVCYRIKSLRATLQIFSTGSI
          .....F.VI.TDFKVVN.LAVCNMPFEIRLPEFTKNN.PHASYEPELHPAVCY.IKSLRATLQ.FSTGSI
Retrocopy LQKLGFQVILTDFKVVNILAVCNMPFEIRLPEFTKNN*PHASYEPELHPAVCYPIKSLRATLQMFSTGSI

Parental  TVTGPNVKAVATAVEQIYPFVFESRKEIL
          TVT.PNVKA.ATAV.QIY.F.FESRKEIL
Retrocopy TVTEPNVKAIATAVDQIYLFAFESRKEIL

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_1509 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.

---

Parental genes homology:

Parental genes homology involve 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007544	1 retrocopy	retro_chof_469,
Cavia porcellus	ENSCPOG00000011899	1 retrocopy	retro_cpor_575,
Echinops telfairi	ENSETEG00000015892	1 retrocopy	retro_etel_1883,
Monodelphis domestica	ENSMODG00000017515	1 retrocopy	retro_mdom_1220,
Otolemur garnettii	ENSOGAG00000006622	2 retrocopies	retro_ogar_1508, retro_ogar_1509 ,