RetrogeneDB ID: retro_ogar_1293

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873541.1:16041453..16042064(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000014509
• 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_1293
GATAGAGAAGGACTGGAGCACCAGCTGCACAGGCAAACTGAAATCCAGGCGCATCTGCAACACCCCAATATCCTAAGGCT
GTTCAATTCCTTCTGTGATGCTCCCCATGTGTATGTGATTCTGGAATATGCTCCAAGGGGTGAGCTGTACAAAGACCTGC
AGAAAAACCACACATTTGATGAGCAGCAAACAGCCACAGTAATGGAGGAGTCGGCAGATGCCCTGACTTACTGCCATGAC
AAGAAAGTCATCACAGGGATATTAAGCCAGAAAACCTGCTTCTGGGTTTCAGGGGTGAGGTGAAGATTGCAGATTTTGGC
TGGCCTGTGCACACTCCCTCTCTGAGGAGAAAGACAATGTGTGGAACACTTGACTACTTGCCCTAGAAATGGTTGAGGGG
AGGACATATGATGAAAAGGTGGACCTGTGGTGCATTGGGGTACTCTGCTATGAGCTGTTGGTGGGAAATCCCCGCTTTGA
GAGCACCTCCTACAATGAGATCTACAGGTGCATCCTCAAGGTAGATGTGAGAGGTCCCCCAAACGATGCCTTTGGGGGCC
CAGGACCTGATCTCCAAGTTTCTCTGATACAAGCCTCAGGAGCGCTGCCCC

Alignment

ORF - retro_ogar_1293 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.57 %
• Parental protein coverage: 73.12 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EKEGLEHQLRREIEIQARLQHPNILRLYNYFHDARRVYLILEYAPRGELYKELQKNHTFDEQRTATIMEE
          ..EGLEHQL.R..EIQA.LQHPNILRL.N.F.DA..VY.ILEYAPRGELYK.LQKNHTFDEQ.TAT.MEE
Retrocopy DREGLEHQLHRQTEIQAHLQHPNILRLFNSFCDAPHVYVILEYAPRGELYKDLQKNHTFDEQQTATVMEE

Parental  LADALTYCHDKKVI-HRDIKPENLLLGLRGEVKIADFGWSVHTPSLRRNTMCGTLDYLP-PEMVEGRTYD
          .ADALTYCHDKKVI.HRDIKPENLLLG.RGEVKIADFGW.VHTPSLRR.TMCGTLDYLP..EMVEGRTYD
Retrocopy SADALTYCHDKKVI<HRDIKPENLLLGFRGEVKIADFGWPVHTPSLRRKTMCGTLDYLP<LEMVEGRTYD

Parental  EKVDLWCIGVLCYELLVGKPPFESTSYNETYRRIVKVDVR-FPQTMPSGAQDLISRLLRYKPQERLP
          EKVDLWCIGVLCYELLVG.P.FESTSYNE.YR.I.KVDVR..PQTMP.GAQDLIS..L.YKPQER.P
Retrocopy EKVDLWCIGVLCYELLVGNPRFESTSYNEIYRCILKVDVR>VPQTMPLGAQDLISKFL*YKPQERCP

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_1293 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 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,