RetrogeneDB ID: retro_ogar_1119

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873536.1:23952110..23953076(+)
• Located in intron of: ENSOGAG00000012173

Retrocopy information

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

Parental gene information

• Parental gene symbol: RBM17
• Ensembl ID: ENSOGAG00000015687
• Aliases: None
• Description: RNA binding motif protein 17 [Source:HGNC Symbol;Acc:16944]

Sequence

>retro_ogar_1119
GGGCTGAAGGATCCAGTTCCCAGCCGGTTTTCTGCTGGGGAAGTTCTGATTTCTTCAGCTGACGAGTATGACCCTGTGTT
CCCTGACCACCAAGAGAAAGTAGTGAAGTGCCACGGAGAGGAGCGGCAGAGACAGCGGGAACTGGAAAGGCAGAGGAAGT
AGAAGAGAAAGAAAAGCAGTGTAAAGACAGGTGTGAAACAAGACGACCAGATCCAGATTCTGATGAAGATGAAGATTATG
AGCAAGAGAGGAGGAAAAGAAGTATGGGCAGAGCTGCCATAGTGCCACCGACCTCTCTGGTAGAGAAAGACAAAGAGTTA
CCTCGAGATTTTCCTTACGAAGACGACTTGAAACCTCACTCACAGTCTTCCAAGGCTGCTATCCCACCCCTGGCGTACAG
GGAGCAGGACAGACCGAGGTCTCCTACTGGGCCCTGCAACTCCTTCCTTGGTAACATGGGGGACACAGTGGCACATAAGA
TCATGTAGAAACTTCCAGGAGGGCCAGGGCCTGGGGAAGCATGAGCAGGGCCTGAGCACTGCCCTGTGGGTGGAGAAGAC
CAGCAAGTGTGGTGGCAAGATCACTGTGTGTGACGTGACTGAGAAAGGTGACTCCCCAGATGCAACCAAGAATTTGGATT
CAAATCTGTTAACTGAAATACTCAAGTGTCCTACTAAAGTGGTCCTGTTAAGGAACATGGTCAGTGCAGGAGAGGTAGAT
GAAGACCTGGAAGTTGAGACCAAGGAAGAATGTGAAAAATATGACAAAGTGGGAAAAAGTGTGATATTTGAAATCCCTAG
GGCCCCAGACAACAAAGAAGTATGGATATTTTTAGAATTTGAGAGAGTGGAATCAGCAATTAAAACTGTTGTTGATCTGA
ATGGGAGGTATTTTGGTGGATGAGTGTTTAAAGCATGTTTCTACAATTTGGATAAATGCAGGGTCTTGGATTTGGCAGAA
CAAGTT

Alignment

ORF - retro_ogar_1119 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.39 %
• Parental protein coverage: 80.99 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GLKDPVPSGFSAGEVLIPLADEYDPMFPNDYEKVVKRHREERQRQRELERQK-EIEEREKRRKDRHETSG
          GLKDPVPS.FSAGEVLI..ADEYDP.FP...EKVVK.H.EERQRQRELERQ..E.EE.EK..KDR.ET..
Retrocopy GLKDPVPSRFSAGEVLISSADEYDPVFPDHQEKVVKCHGEERQRQRELERQR<EVEEKEKQCKDRCET--

Parental  FSRRPDPDSDEDEDYERERRKRSMGGAAIAPPTSLVEKDKELPRDFPYEEDSRPRSQSSKAAIPPPVYEE
          ..RRPDPDSDEDEDYE.ERRKRSMG.AAI.PPTSLVEKDKELPRDFPYE.D..P.SQSSKAAIPP..Y.E
Retrocopy --RRPDPDSDEDEDYEQERRKRSMGRAAIVPPTSLVEKDKELPRDFPYEDDLKPHSQSSKAAIPPLAYRE

Parental  QDRPRSPT-GPSNSFLANMGGTVAHKIMQKYGFREGQGLGKHEQGLSTALSVEKTSKRGGKIIVGDATEK
          QDRPRSPT.GP....L...G.T..H.I.....F.EGQGLGKHEQGLSTAL.VEKTSK.GGKI.V.D.TEK
Retrocopy QDRPRSPT>GPATPSLVTWG-TQWH-IRSCRNFQEGQGLGKHEQGLSTALWVEKTSKCGGKITVCDVTEK

Parental  GDSPDATKKSDSNPLTEILKCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDE
          GDSPDATK..DSN.LTEILKCPTKVVLLRNMV.AGEVDEDLEVETKEECEKY.KVGK.VIFEIP.APD..
Retrocopy GDSPDATKNLDSNLLTEILKCPTKVVLLRNMVSAGEVDEDLEVETKEECEKYDKVGKSVIFEIPRAPDNK

Parental  AVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVLDLAEQV
          .V.IFLEFERVESAIK.VVDLNGRYFGG.V.KACFYNLDK.RVLDLAEQV
Retrocopy EVWIFLEFERVESAIKTVVDLNGRYFGG*VFKACFYNLDKCRVLDLAEQV

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_1119 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 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000021951	2 retrocopies	retro_btau_1057, retro_btau_530,
Canis familiaris	ENSCAFG00000005206	1 retrocopy	retro_cfam_844,
Callithrix jacchus	ENSCJAG00000020573	1 retrocopy	retro_cjac_432,
Equus caballus	ENSECAG00000008939	1 retrocopy	retro_ecab_547,
Erinaceus europaeus	ENSEEUG00000013077	1 retrocopy	retro_eeur_390,
Homo sapiens	ENSG00000134453	1 retrocopy	retro_hsap_1551,
Macropus eugenii	ENSMEUG00000011347	1 retrocopy	retro_meug_438,
Macaca mulatta	ENSMMUG00000015152	2 retrocopies	retro_mmul_1209, retro_mmul_771,
Mus musculus	ENSMUSG00000037197	1 retrocopy	retro_mmus_2855,
Otolemur garnettii	ENSOGAG00000015687	1 retrocopy	retro_ogar_1119 ,
Pongo abelii	ENSPPYG00000002067	1 retrocopy	retro_pabe_1284,
Pan troglodytes	ENSPTRG00000002265	1 retrocopy	retro_ptro_1044,
Ictidomys tridecemlineatus	ENSSTOG00000013591	1 retrocopy	retro_itri_1376,
Tursiops truncatus	ENSTTRG00000001344	1 retrocopy	retro_ttru_1758,