RetrogeneDB ID: retro_ogar_1059

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873534.1:26552710..26554003(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000027012
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000004001
• Aliases: None
• Description: None

Sequence

>retro_ogar_1059
ATGTCTATTCTCAAGATCCATGCCAGAGAGATCTTTGACTCTCGTGAAAACCCCACTGTCGAGGTTGATCTCTGCACTTC
AAAAGGTCTCTTCAGAGCTGCTGTGCCAAGTGGTGCCTCAACTGGTGTCTATGAGGCCCTGGAGCTCCGAGACAATGATA
AGACTCGCTACATGGGGAAGGGTGTCTCAAAGGCTGTTGAGCACATCAATAAAACTATTGCGCCTGCCCTGGTTAGCAAG
AAATTGAACGTCCCGGAACAGGAGAAGATTGACAAACTCATGATGGAGATGGATGGAACAGAAAACAAATCTAAGTTTGG
TGCAAATGCCATCCTGGCGTTGTCTCTTGCTGTCTGCAAAGCTGGTGCTGTTGAGAAGGGCGTCCCCCTATACCGCCACA
TTGCTGACTTGGCTGGAAATGAAGACGTCATTCTTCCAGTCCCGGCTTTCAATGTCATAAACGGTGGTTCTCACGCTGAC
AACAAACTGGCCATGCAGGAGTTCATGATCCTCCCTGTGGGCGCATCAAACTTCCGGGAAGCCATGCGCATTGGAGCCGA
GGTTTACCACAACCTGAAGAACGTCATCAAGGAGAAATACGGGAAAGATGCCACCAACGTGGGGGACGAAGGCGGGTTTG
CTCCCAATATCCTGGAAAATAAAGAAGCCCTGGAGCTGCTGAAGAACGCTATCGGGAAGGCCGGCTACTCCGACAAGGTG
GTCATCGGCATGGACGTCGCTGCCTCCGACTTCTACAGGTCTGGGAAATATGACCTGGACTTCAAGTCACCTGATGACCC
CAGCAGATACATCACCCCTGACCAGCTAGCTGACCTGTACAAGTCCTTCATCAAGGACTACCCAGTGGTGTCTATTGAAG
ATCCCTTTGACCAGGATGACTGGGAGTCTTGGCAGAAGTTCACTACTAGTGCAGGAATCCAGGTGGTAGGGGACGATCTC
ACGGTGACCAACCCAAAGCGGATTTCCAAGGCTGTGAGTGAAATATCGTGCAACTGCCTCCTGCTCAAAGTGAACCAGAA
CGGCTCCGTGACTGAGTCCCTTCAGGCGTGCAAGATGGCCCAGTCCAATGGTTGGGGCGTCATGGTGTCTCATCGTTCCG
GGGAGACTGAAGATACCTTCATCGCGGACCTGGTGGTGGGGCTCTGCACTGGGCAGATCAAGACTGGTGCACCTTGCCGA
TCTGACCGCTTGGCCAAGTACAATCAGATCTTCAGAATTGAAGAGGAACTGGGCAGCAAGGCCGTGTTTGCTGGCAGGAA
CTTCAGAAACCCC

Alignment

ORF - retro_ogar_1059 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.77 %
• Parental protein coverage: 99.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSILKIHAREIFDSRGNPTVEVDLCTSKGLFRAAVPSGASTGVYEALELRDNDKTRYMGKGVSKAVEHIN
          MSILKIHAREIFDSR.NPTVEVDLCTSKGLFRAAVPSGASTGVYEALELRDNDKTRYMGKGVSKAVEHIN
Retrocopy MSILKIHAREIFDSRENPTVEVDLCTSKGLFRAAVPSGASTGVYEALELRDNDKTRYMGKGVSKAVEHIN

Parental  KTIAPALVSKKLNVTEQEKIDKLMMEMDGTENKSKFGANAILGVSLAVCKAGAVEKGVPLYRHIADLAGN
          KTIAPALVSKKLNV.EQEKIDKLMMEMDGTENKSKFGANAIL..SLAVCKAGAVEKGVPLYRHIADLAGN
Retrocopy KTIAPALVSKKLNVPEQEKIDKLMMEMDGTENKSKFGANAILALSLAVCKAGAVEKGVPLYRHIADLAGN

Parental  EDVILPVPAFNVINGGSHAGNKLAMQEFMILPVGASNFREAMRIGAEVYHNLKNVIKEKYGKDATNVGDE
          EDVILPVPAFNVINGGSHA.NKLAMQEFMILPVGASNFREAMRIGAEVYHNLKNVIKEKYGKDATNVGDE
Retrocopy EDVILPVPAFNVINGGSHADNKLAMQEFMILPVGASNFREAMRIGAEVYHNLKNVIKEKYGKDATNVGDE

Parental  GGFAPNILENKEALELLKNAIGKAGYSDKVVIGMDVAASEFYRSGKYDLDFKSPDDPSRYITPDQLADLY
          GGFAPNILENKEALELLKNAIGKAGYSDKVVIGMDVAAS.FYRSGKYDLDFKSPDDPSRYITPDQLADLY
Retrocopy GGFAPNILENKEALELLKNAIGKAGYSDKVVIGMDVAASDFYRSGKYDLDFKSPDDPSRYITPDQLADLY

Parental  KSFIKDYPVVSIEDPFDQDDWESWQKFTSSAGIQVVGDDLTVTNPKRISKAVSEKSCNCLLLKVNQIGSV
          KSFIKDYPVVSIEDPFDQDDWESWQKFT.SAGIQVVGDDLTVTNPKRISKAVSE.SCNCLLLKVNQ.GSV
Retrocopy KSFIKDYPVVSIEDPFDQDDWESWQKFTTSAGIQVVGDDLTVTNPKRISKAVSEISCNCLLLKVNQNGSV

Parental  TESLQACKMAQSNGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKYNQILSVPRIEEEL
          TESLQACKMAQSNGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRS.RLAKYNQI....RIEEEL
Retrocopy TESLQACKMAQSNGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSDRLAKYNQIF---RIEEEL

Parental  GSKAVFAGRNFRNP
          GSKAVFAGRNFRNP
Retrocopy GSKAVFAGRNFRNP

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_1059 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 15 parental genes, and 30 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003483	2 retrocopies	retro_chof_1289, retro_chof_1811,
Callithrix jacchus	ENSCJAG00000000359	4 retrocopies	retro_cjac_1963, retro_cjac_2238, retro_cjac_3891, retro_cjac_438,
Erinaceus europaeus	ENSEEUG00000008602	2 retrocopies	retro_eeur_23, retro_eeur_243,
Homo sapiens	ENSG00000074800	1 retrocopy	retro_hsap_325,
Macropus eugenii	ENSMEUG00000005942	11 retrocopies	retro_meug_1445, retro_meug_1521, retro_meug_353, retro_meug_472, retro_meug_494, retro_meug_652, retro_meug_664, retro_meug_765, retro_meug_794, retro_meug_874, retro_meug_888,
Macropus eugenii	ENSMEUG00000007840	1 retrocopy	retro_meug_96,
Monodelphis domestica	ENSMODG00000009521	1 retrocopy	retro_mdom_1794,
Mus musculus	ENSMUSG00000063524	1 retrocopy	retro_mmus_109,
Otolemur garnettii	ENSOGAG00000004001	1 retrocopy	retro_ogar_1059 ,
Ochotona princeps	ENSOPRG00000009492	1 retrocopy	retro_opri_969,
Pan troglodytes	ENSPTRG00000000109	1 retrocopy	retro_ptro_261,
Pteropus vampyrus	ENSPVAG00000005030	1 retrocopy	retro_pvam_317,
Rattus norvegicus	ENSRNOG00000017895	1 retrocopy	retro_rnor_112,
Sarcophilus harrisii	ENSSHAG00000005522	1 retrocopy	retro_shar_304,
Tarsius syrichta	ENSTSYG00000002509	1 retrocopy	retro_tsyr_2011,