RetrogeneDB ID: retro_ogar_1122

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873536.1:28462522..28462986(+)
• Located in intron of: ENSOGAG00000004102

Retrocopy information

• Ensembl ID: ENSOGAG00000025278
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: AURKC
• Ensembl ID: ENSOGAG00000000999
• Aliases: None
• Description: aurora kinase C [Source:HGNC Symbol;Acc:11391]

Sequence

>retro_ogar_1122
ACTTACTGCCATGACAGGAAAGTGATCACAGAGAAGTTAAGCCAGAAAACCTGCTTCTGGGCTTCAAGGGTGAGGTGGAA
GATTGCAGATTTGGGCTGGTCTGTGCACAGCCCCTCTCTGAGGAGAAACGCAGTGTGTGGAACACTTGACTACTTGACCC
CGGAAATGGGGGAGGGGAAGACATATGATGAAGAGGTGGATCTGGGGTGCACTGGGGTGCTGTGCTACAGGATGTTGGTG
GGAAAGCCGCCCTTTGAGAGCACCTCACCCAGTGAGACCTACAGGCACATCGTCAAGGTAGAGGGGAGGTTCCTCCAAAC
GATGCCTTCCGAGGCCCAGGACCTGATCTCCAAGCTTCTCCGATATGAGCCCCAGGAGCGGCTGCCCCGGCCCAGATCCT
GGAGCACCCTTGGGTCAGGGCCCATTCCCGGAGGGGGCTGCCTCCCTGTGCTCAGATGACTTCC

Alignment

ORF - retro_ogar_1122 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.75 %
• Parental protein coverage: 55.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TYCHDKKVI-HRDIKPENLLLGLRGEV-KIADFGWSVHTPSLRRNTMCGTLDYLPPEMVEGRTYDEKVDL
          TYCHD.KVI.HR..KPENLLLG..GEV.KIAD.GWSVH.PSLRRN..CGTLDYL.PEM.EG.TYDE.VDL
Retrocopy TYCHDRKVI<HREVKPENLLLGFKGEV>KIADLGWSVHSPSLRRNAVCGTLDYLTPEMGEGKTYDEEVDL

Parental  WCIGVLCYELLVGKPPFESTSYNETYRRIVKVDVRFPQTMPSGAQDLISRLLRYKPQERLPL-AQILEHP
          .C.GVLCY..LVGKPPFESTS..ETYR.IVKV..RF.QTMPS.AQDLIS.LLRY.PQERLP..AQILEHP
Retrocopy GCTGVLCYRMLVGKPPFESTSPSETYRHIVKVEGRFLQTMPSEAQDLISKLLRYEPQERLPR<AQILEHP

Parental  WVQAHSRRVLPPCAQMTS
          WV.AHSRR.LPPCAQMTS
Retrocopy WVRAHSRRGLPPCAQMTS

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_1122 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 6 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000023297	1 retrocopy	retro_cfam_1177,
Echinops telfairi	ENSETEG00000015413	1 retrocopy	retro_etel_1828,
Macropus eugenii	ENSMEUG00000014431	2 retrocopies	retro_meug_741, retro_meug_947,
Mus musculus	ENSMUSG00000070837	1 retrocopy	retro_mmus_2455,
Otolemur garnettii	ENSOGAG00000000999	6 retrocopies	retro_ogar_1122 , retro_ogar_1159, retro_ogar_1240, retro_ogar_1293, retro_ogar_2384, retro_ogar_923,
Otolemur garnettii	ENSOGAG00000004441	3 retrocopies	retro_ogar_2805, retro_ogar_3440, retro_ogar_980,