RetrogeneDB ID: retro_ogar_843

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873529.1:14825648..14826031(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000025493
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PMP2
• Ensembl ID: ENSOGAG00000012166
• Aliases: None
• Description: peripheral myelin protein 2 [Source:HGNC Symbol;Acc:9117]

Sequence

>retro_ogar_843
AGTCAACAGCTTGCAGGAAGATGGCGCCTCGTGGACAGCAAAGGCTTTGATGAATACATGAAGGAACTAGGAGTGGGGCT
AGCTCTACGAAAAATGGGTGCAATGGCTAAGCCACATTGTGTCATCACTTGTGACGGCAAAAACCTCGCCATAAAAATGG
AAAGCACTTTGAAAACGACACAGTTTTGGGAGATAAGTTTGAAGAAAATACAGCTGATGGCAGAAAAACTCAGACTGTCT
GCAACCTTACAGATGGCTCATTGGTTCAACATCAAGAATGGGATGGGAAAGAAAGCACGATAACAAGAAAAGTGACAGAT
GGGAAATTAGTGGTGGAATGCATCATGAACAATGTCACCTGTACTCGGGTCTATGAAAAAGTA

Alignment

ORF - retro_ogar_843 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.55 %
• Parental protein coverage: 97.76 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SNRFLGTWKLVSSERFDDYMKALGVGLATRKLGNLAKPRVIISKKGDIITIRTEST-FKNTEISFKLGQE
          S....G.W.LV.S..FD.YMK.LGVGLA.RK.G..AKP...I...G....I..EST.F.N......LG..
Retrocopy SQQLAGRWRLVDSKGFDEYMKELGVGLALRKMGAMAKPHCVITCDGKNLAIKMEST<FENDTV---LGDK

Parental  FEETTADNRKTKSIVTLERGSLNQVQKWDGKETTIKRKLMNGKMVVECMMKGVVCTRIYEKV
          FEE.TAD.RKT.....L..GSL.Q.Q.WDGKE.TI.RK...GK.VVEC.M..V.CTR.YEKV
Retrocopy FEENTADGRKTQTVCNLTDGSLVQHQEWDGKESTITRKVTDGKLVVECIMNNVTCTRVYEKV

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_843 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 7 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Latimeria chalumnae	ENSLACG00000008511	3 retrocopies	retro_lcha_37, retro_lcha_45, retro_lcha_57,
Myotis lucifugus	ENSMLUG00000009529	1 retrocopy	retro_mluc_1953,
Otolemur garnettii	ENSOGAG00000002413	10 retrocopies	retro_ogar_1024, retro_ogar_1151, retro_ogar_1286, retro_ogar_1676, retro_ogar_2873, retro_ogar_3066, retro_ogar_3099, retro_ogar_3265, retro_ogar_715, retro_ogar_878,
Otolemur garnettii	ENSOGAG00000012166	1 retrocopy	retro_ogar_843 ,
Otolemur garnettii	ENSOGAG00000013757	4 retrocopies	retro_ogar_1148, retro_ogar_1312, retro_ogar_1873, retro_ogar_959,
Otolemur garnettii	ENSOGAG00000031110	1 retrocopy	retro_ogar_2821,
Oryzias latipes	ENSORLG00000008282	1 retrocopy	retro_olat_7,