RetrogeneDB ID: retro_ogar_3224

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873746.1:1896859..1897335(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C15orf41
• Ensembl ID: ENSOGAG00000006789
• Aliases: None
• Description: chromosome 15 open reading frame 41 [Source:HGNC Symbol;Acc:26929]

Sequence

>retro_ogar_3224
ATGATACTGACCAAAGCCCAGTATGACAAGATAGCCCAGTGCCTAGTGTCTGTGCCACCCACCAGGCAGAGCCTGAGGAA
GCTGAAACAGAGGTTCCACAGTCAATCTCAGGCCACTCTACTGAGCTTCTTCTTCCAGGATACCAGAAGCGTATTAAAAG
AACGCATACCAAACATACTTTGGAAGCAATTGAAAGTTATTACCAGAGGTACCTGAATGGAGTGGTAAAAAATGGAGCCA
CCCCAGTGCTCCTGGAGCTGGCCAATGATGTGCACTATGTACCCTCATTAATGGCTCGGCTTATACTAGAGAGGTGTCTA
CAGTAACACGAAGGAACTCCACCCTCCAATTCTGTTATAAATAGTATGTTACGAGACCCTTCTCAGATTCCAGATGGAGT
TCTAGAAAATCAGGTCTATCAGTGCATCGTGAATGACTGCCATTATGGATCACTGGTGGAATGACTGCATCAAGCA

Alignment

ORF - retro_ogar_3224 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.23 %
• Parental protein coverage: 67.23 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MILTKAQYDEIAQCLVSVPPTRQSLRKLKQRFPSQSQATLLSIFSQE-YQKHIKRTHAKHHTSEAIESYY
          MILTKAQYD.IAQCLVSVPPTRQSLRKLKQRF.SQSQATLLS.F.Q..YQK.IKRTH.KH.T.EAIESYY
Retrocopy MILTKAQYDKIAQCLVSVPPTRQSLRKLKQRFHSQSQATLLSFFFQD<YQKRIKRTHTKH-TLEAIESYY

Parental  QRYLNGVVKNGAAPVLLELANEVDYAPSLMARLILERFLQEHEETPPSKSVINSMLRDPSQIPDGVLANQ
          QRYLNGVVKNGA.PVLLELAN.V.Y.PSLMARLILER.LQ.HE.TPPS.SVINSMLRDPSQIPDGVL.NQ
Retrocopy QRYLNGVVKNGATPVLLELANDVHYVPSLMARLILERCLQ*HEGTPPSNSVINSMLRDPSQIPDGVLENQ

Parental  VYQCVVNDCCYGPLVDCIKHA
          VYQC.VNDC.YG.LV.....A
Retrocopy VYQCIVNDCHYGSLVE*LHQA

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_3224 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000014422	1 retrocopy	retro_dnov_2681,
Monodelphis domestica	ENSMODG00000001293	1 retrocopy	retro_mdom_1279,
Oryctolagus cuniculus	ENSOCUG00000016099	1 retrocopy	retro_ocun_1574,
Otolemur garnettii	ENSOGAG00000006789	1 retrocopy	retro_ogar_3224 ,