RetrogeneDB ID: retro_ogar_2716

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873653.1:3711587..3712358(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UNG
• Ensembl ID: ENSOGAG00000007441
• Aliases: None
• Description: uracil-DNA glycosylase [Source:HGNC Symbol;Acc:12572]

Sequence

>retro_ogar_2716
CGGCCGGTGACCCGCCTCTGTGGGGTCCCCTTACAGGCCAGCTCGGCCAAGAAGGCCCAGGCCAGGCGGGGCGAGCCCAG
CACCGCGCCCTCCTCGCCGCTGAACCCGGAGCGGCTGGTCCACATCCAGAGGAACAAGGCCGTGCCCCTGCTCAGGCTCG
CAGCCCGCAAGGTGCCCATGGGCTTCAGTGAGAGTTGGAAGAAGCACCTCAGCGGAGAGTTTGGGAAACTATTTTATAAA
ATTAATGGGATTTGTTGCAAAAGAAAGAAAACGTTACGCTGTTTATCCACCCCTACACCAAGTCTTCACTTGGACCCAAA
TGTGTGACATAAGAGATGTGAAAGTTGTTATCCTAGAGCAGGATCCGTATCATGAACCCAGTAAGCTCATGGGCTCTGCT
TTAGTGTTCAAAGACCTGTTCCACCTCCGCCCAGTTTGGAAAACATTTATAAAGAGCTGTCTATAGACATAGATGGTTTT
GTTCATCCTGGCCATGGAGATTTATCCGGGTGGGCCAAGCAAGGTGTTCTCAATGCAGTCCTCACCGTGCGAGCCCATTA
AGACAATTCTCATAAGGAGAGGGGCTGGGAGCAGTTTACCGATGCAGTTCTGACCTGGCTAAATTGGAACTTTAATGGGC
TTGTGTGCGTGCTCTGAGGTTCGTATGCTCAGAAGAGGGACAGTGCCAGTGCTAGGAAGCGGCGTCTTGTACTGCAGACT
GCTCTCTCCTCCCCATTGTCAGTGTACAGAGGCTTCTTTGGGTGTAGACAC

Alignment

ORF - retro_ogar_2716 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.86 %
• Parental protein coverage: 85.25 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  RPVTRFCGDPLQASHAKKARAGQDEPGTPPSLPLSPEQLVRIQRNKAAALLRLAARNVPVGFGESWKKHL
          RPVTR.CG.PLQAS.AKKA.A...EP.T.PS.PL.PE.LV.IQRNKA..LLRLAAR.VP.GF.ESWKKHL
Retrocopy RPVTRLCGVPLQASSAKKAQARRGEPSTAPSSPLNPERLVHIQRNKAVPLLRLAARKVPMGFSESWKKHL

Parental  SGEFGKPYFVKLIEFVAEERK-HYTVYPPPHQVFTWTQMCDIRDVKVVILGQDPYHGPNQ-AHGLCFSVQ
          SGEFGK..F.K.........K..Y.VYPP.HQVFTWTQMCDIRDVKVVIL.QDPYH.P...AHGLCFSVQ
Retrocopy SGEFGK-LFYKINGICCKRKK>RYAVYPPLHQVFTWTQMCDIRDVKVVILEQDPYHEPSK<AHGLCFSVQ

Parental  RPVPPPPSLENIYKELSTDIDGFVHPGHGDLSGWAKQGVLLLNAVLTVRAHQANSHKERGWEQFTDAVVT
          RPVPPPPSLENIYKELS.DIDGFVHPGHGDLSGWAKQGV..LNAVLTVRAH..NSHKERGWEQFTDAV.T
Retrocopy RPVPPPPSLENIYKELSIDIDGFVHPGHGDLSGWAKQGV--LNAVLTVRAH*DNSHKERGWEQFTDAVLT

Parental  WLNQNLNGLVFLLWGSYAQKKGSAIDRKRHHVLQTAHPSPLSVYRGFFGCRH
          WLN.N.NGLV..L.GSYAQK..SA..RKR..VLQTA..SPLSVYRGFFGCRH
Retrocopy WLNWNFNGLVCVL*GSYAQKRDSASARKRRLVLQTALSSPLSVYRGFFGCRH

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_2716 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 18 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000016525	1 retrocopy	retro_amel_153,
Canis familiaris	ENSCAFG00000011144	1 retrocopy	retro_cfam_1567,
Callithrix jacchus	ENSCJAG00000010134	2 retrocopies	retro_cjac_1467, retro_cjac_520,
Cavia porcellus	ENSCPOG00000004634	3 retrocopies	retro_cpor_1339, retro_cpor_6, retro_cpor_863,
Dasypus novemcinctus	ENSDNOG00000005335	2 retrocopies	retro_dnov_1001, retro_dnov_627,
Equus caballus	ENSECAG00000008080	1 retrocopy	retro_ecab_747,
Felis catus	ENSFCAG00000008349	1 retrocopy	retro_fcat_445,
Macropus eugenii	ENSMEUG00000015792	3 retrocopies	retro_meug_1594, retro_meug_1877, retro_meug_2077,
Myotis lucifugus	ENSMLUG00000010755	3 retrocopies	retro_mluc_1305, retro_mluc_2060, retro_mluc_989,
Macaca mulatta	ENSMMUG00000006957	2 retrocopies	retro_mmul_1564, retro_mmul_2115,
Mustela putorius furo	ENSMPUG00000003463	1 retrocopy	retro_mputfur_1592,
Nomascus leucogenys	ENSNLEG00000001442	3 retrocopies	retro_nleu_1325, retro_nleu_1950, retro_nleu_2802,
Oryctolagus cuniculus	ENSOCUG00000003145	1 retrocopy	retro_ocun_1767,
Otolemur garnettii	ENSOGAG00000007441	2 retrocopies	retro_ogar_1593, retro_ogar_2716 ,
Pongo abelii	ENSPPYG00000004929	3 retrocopies	retro_pabe_1354, retro_pabe_1355, retro_pabe_2792,
Pan troglodytes	ENSPTRG00000005419	1 retrocopy	retro_ptro_1108,
Sus scrofa	ENSSSCG00000009938	1 retrocopy	retro_sscr_1202,
Ictidomys tridecemlineatus	ENSSTOG00000006894	1 retrocopy	retro_itri_661,