RetrogeneDB ID: retro_ogar_1203

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873539.1:5334918..5335562(+)
• Located in intron of: ENSOGAG00000006845

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000006157
• Aliases: None
• Description: None

Sequence

>retro_ogar_1203
GACTATGCTGGACTTATTATTCCGCCTGCTCCTACAAAGCCTGACTTTGATGGTCCTCGAGAGAAGCTGCAGAAACTGGG
AGAGGATGAAGGGTCCATGACCAAAGAAGAATTGGCCAAGATGAAACGAGAACTGGAGGCTGAGTAGCTTGCTGTCTTTG
AGAAGACTGTATCTTCCCATGATGCCTTTCTTCAGTGGTTTTCTTCTCACCCTGTTCTCAGTAAAGACCGAAACTGACAC
GTTTCCTAGACTATGATCAGGATATAAGTGTTAGGCGGAAAAATACCAAAGACATGTTTGGTGGCTTTTTCGAAAGTGGT
GTGAAGAGTGCTGATGAAGTCCTTTTTTCTGGAGTTAAGGAGGTGGATGACTGCTTTGAGCAAGAGAACTTTCTTATTAA
TTATTACAATAGGATTAAGGATTCCTGTGTGCAAGCTGACAAAATGACCAGATCTTATAAAAATGTTGCAGATGACTACA
TCCAAACTGCAGCTTGCTTGCACAGCCTGGCTTTAGAAGAGCCCAGGGGCATAAAAAAGTACCTATTGAAGGTTGCTGAG
CTATTTGAGAACCTTACAAAAGTAAAGGGTCAAGTCTCATCAGATGAAGATTTAAAGCTTCTCTGATACTACATGCTCAA
CATA

Alignment

ORF - retro_ogar_1203 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.55 %
• Parental protein coverage: 54.21 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  DYAGLIIPPAPTKPDFDGPREKMQKLGEGEGSMTKEEFAKMKQELEAEYLAVFKKTVSSHEVFLQRLSSH
          DYAGLIIPPAPTKPDFDGPREK.QKLGE.EGSMTKEE.AKMK.ELEAE.LAVF.KTVSSH..FLQ..SSH
Retrocopy DYAGLIIPPAPTKPDFDGPREKLQKLGEDEGSMTKEELAKMKRELEAE*LAVFEKTVSSHDAFLQWFSSH

Parental  PVLSKDRNFHV-FLEYDQDLSVRRKNPKEVFGGFFKSVVKSADEVLFSGVKEVDDFFEQEKNFLINYYNR
          PVLSKDRN.HV.FL.YDQD.SVRRKN.K..FGGFF.S.VKSADEVLFSGVKEVDD.FEQE.NFLINYYNR
Retrocopy PVLSKDRN*HV<FLDYDQDISVRRKNTKDMFGGFFESGVKSADEVLFSGVKEVDDCFEQE-NFLINYYNR

Parental  IKDSCVKADKMTRSHKNVADDYIHTAACLHSLALEEPLVIKKYLLKVAELFEKLRKVEGRVSSDEDLKLT
          IKDSCV.ADKMTRS.KNVADDYI.TAACLHSLALEEP..IKKYLLKVAELFE.L.KV.G.VSSDEDLKL.
Retrocopy IKDSCVQADKMTRSYKNVADDYIQTAACLHSLALEEPRGIKKYLLKVAELFENLTKVKGQVSSDEDLKL-

Parental  ELLRYYMLNI
          ..L.YYMLNI
Retrocopy --L*YYMLNI

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_1203 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 14 parental genes, and 20 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010128	2 retrocopies	retro_chof_1478, retro_chof_2166,
Callithrix jacchus	ENSCJAG00000004947	2 retrocopies	retro_cjac_2192, retro_cjac_3243,
Homo sapiens	ENSG00000089006	2 retrocopies	retro_hsap_1051, retro_hsap_2945,
Gorilla gorilla	ENSGGOG00000008953	1 retrocopy	retro_ggor_829,
Macropus eugenii	ENSMEUG00000009110	1 retrocopy	retro_meug_475,
Macaca mulatta	ENSMMUG00000011476	2 retrocopies	retro_mmul_1746, retro_mmul_832,
Nomascus leucogenys	ENSNLEG00000009714	1 retrocopy	retro_nleu_2071,
Oryctolagus cuniculus	ENSOCUG00000017072	1 retrocopy	retro_ocun_1323,
Otolemur garnettii	ENSOGAG00000006157	1 retrocopy	retro_ogar_1203 ,
Pongo abelii	ENSPPYG00000010730	2 retrocopies	retro_pabe_2442, retro_pabe_877,
Pan troglodytes	ENSPTRG00000013278	2 retrocopies	retro_ptro_2052, retro_ptro_717,
Sus scrofa	ENSSSCG00000007088	1 retrocopy	retro_sscr_593,
Ictidomys tridecemlineatus	ENSSTOG00000015416	1 retrocopy	retro_itri_1176,
Tursiops truncatus	ENSTTRG00000016432	1 retrocopy	retro_ttru_410,