RetrogeneDB ID: retro_ogar_3300

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873771.1:293464..294163(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PEX11B
• Ensembl ID: ENSOGAG00000000204
• Aliases: None
• Description: peroxisomal biogenesis factor 11 beta [Source:HGNC Symbol;Acc:8853]

Sequence

>retro_ogar_3300
CTTCTTGGCCATGCCCTGCAGAGAGATGGGGCCAGTCCTGAGTTACAGAAACAAATTCGACAACTGGAGGGTCATTTGAG
CCTTGGAAGAAAGCTTCTATGCCTGGGTGACTCTGCGGATGCCCTTGAGTCAGCCAAAAATGCTGTGCACATCTCAGATG
TTGTCCTGAGATTCTGCATCACTGTCAGTCACCTCAGTCGACCCTTGTACTTTGCCTGTGACAATATCCTGTGGGCTGGA
AAGCCTGGACTGGCTCCCCGTGTGGATCAGGAGAAGTGGGCCCAGTGTTCATTCAGGTACTATCTGTTCTCCCTTGTCAT
GAATTTGAGCCGTGATGCTTATGAGATTTGCCTACCGATGGAACAAGAGTCTTTAGTTTATAGACGGTGACTGAAGACTT
CTAGAGGAGGAATTTCAGAAGGAATTGAAACTGGGGCATTTGGAGGATCAGGGACACCAGGAGGAGGTCTACCCCAACTG
GCTCTTAAGTTTCTGCCCCAAGTCCTGCTCCTGGCTTGAGTCCTTCAAGGTCATTCCCCACTTCTGCTGGATGTGGTCAG
AAATGCCTGTGATCTCTTCATTCCGCTGGACAAACTAGGCCTCTGGCGCTGTGGCCCTGGGATTATGGGGCTTTGTGGCC
TCATGTCCTCCACCCTGTCTATTCTCACCCTAATATGTCCCTGGCTACAACTGGAGCCC

Alignment

ORF - retro_ogar_3300 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.83 %
• Parental protein coverage: 89.96 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLGHALQRHGASPELQKQIRQLEGHLSLGRKLLRLGNSADALESAKRAVHLSDVVLRFCITVSHLNRALY
          LLGHALQR.GASPELQKQIRQLEGHLSLGRKLL.LG.SADALESAK.AVH.SDVVLRFCITVSHL.R.LY
Retrocopy LLGHALQRDGASPELQKQIRQLEGHLSLGRKLLCLGDSADALESAKNAVHISDVVLRFCITVSHLSRPLY

Parental  FACDNVLWAGKSGLAPRVDQEKWAQRSFRYYLFSLIMNLSRDAYEIRLLMEQESSACSRRLKSSGGGIPG
          FACDN.LWAGK.GLAPRVDQEKWAQ.SFRYYLFSL.MNLSRDAYEI.L.MEQES....R.LK.S.GGI..
Retrocopy FACDNILWAGKPGLAPRVDQEKWAQCSFRYYLFSLVMNLSRDAYEICLPMEQESLVYRR*LKTSRGGISE

Parental  GIETGELGGPGTPGGGLPQLAVKLRLRVLLLARVLRGHPPLLLDVVRNACDLFIPLDKLGLWHCGPGIVG
          GIETG..GG.GTPGGGLPQLA.K....VLLLA.VL.GH.PLLLDVVRNACDLFIPLDKLGLW.CGPGI.G
Retrocopy GIETGAFGGSGTPGGGLPQLALKFLPQVLLLA*VLQGHSPLLLDVVRNACDLFIPLDKLGLWRCGPGIMG

Parental  LCGLVSSILSILTLIYPWLRLKP
          LCGL.SS.LSILTLI.PWL.L.P
Retrocopy LCGLMSSTLSILTLICPWLQLEP

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_3300 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000002223	1 retrocopy	retro_cjac_2594,
Otolemur garnettii	ENSOGAG00000000204	1 retrocopy	retro_ogar_3300 ,