RetrogeneDB ID: retro_ogar_1394

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873545.1:11994519..11994976(+)
• Located in intron of: ENSOGAG00000014881

Retrocopy information

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

Parental gene information

• Parental gene symbol: APOPT1
• Ensembl ID: ENSOGAG00000015416
• Aliases: None
• Description: apoptogenic 1, mitochondrial [Source:HGNC Symbol;Acc:20492]

Sequence

>retro_ogar_1394
CAGGTCTCAAGATTCTGCCCTCCAAGAAAATCCTGCTGTGATTGAATAGGACCCACAGATAAATATTCAGATCTCTGACC
TGTTCACTTTTACATCCCTGAAAAAGAATCACCATCATAACAAAAGCTTTGAAAATTAAGACAAGACACATAAGAATCTA
ATCAACAGTTCTGGGCAAACCAGAACTTCAGATTCAGTAAGGAAAAAGAAGAATTTATTCACTCAAGACTAAAAGCTAAA
GACCTAGAGCTGAGAACTGAGTCATGTCAGGAACCAATATTAAATGATGAAAAAATGGCTGAGTTTTACAAGGAAATTTT
AACAAAAAAATTTCAGAAGCACACGTATTATAACAGAGAGTGGTTTAAGTGGTCCTATGCCATCACCTGCATGGGAAAAG
CAGTCCTGTGAGAGGAGCTAGAACAAGCTCAGACTGAAATGAAAGACGATGGACAAC

Alignment

ORF - retro_ogar_1394 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.18 %
• Parental protein coverage: 74.63 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RISRFCPPTTSCCDWIGPPDKYSNLRPVHFYIPENESPLEQKLRELRQDTQEWNQQFWANQNLTFSKEKE
          ..SRFCPP..SCCD.IGP.DKYS.L.PVHFYIPE.ESP..QKL..LRQDT.E.NQQFWANQN..FSKEKE
Retrocopy QVSRFCPPRKSCCD*IGPTDKYSDL*PVHFYIPEKESPS*QKL*KLRQDT*ESNQQFWANQNFRFSKEKE

Parental  EFIHSTLKAKGLELRTESGQRATLNAEEMAAFYERFLSKNFQKHMCYNREWYKRNFAITFFMGKVAL-ER
          EFIHS.LKAK.LELRTES.Q...LN.E.MA.FY...L.K.FQKH..YNREW.K...AIT..MGK..L.ER
Retrocopy EFIHSRLKAKDLELRTESCQEPILNDEKMAEFYKEILTKKFQKHTYYNREWFKWSYAIT-CMGKAVL>ER

Parental  IWNKLRPKQKKTCN
          ..NKLR.K.K...N
Retrocopy S*NKLRLK*KTMDN

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_1394 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 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000030884	2 retrocopies	retro_cfam_1514, retro_cfam_396,
Dasypus novemcinctus	ENSDNOG00000019553	5 retrocopies	retro_dnov_1003, retro_dnov_2304, retro_dnov_2391, retro_dnov_441, retro_dnov_777,
Erinaceus europaeus	ENSEEUG00000011728	1 retrocopy	retro_eeur_107,
Felis catus	ENSFCAG00000027939	3 retrocopies	retro_fcat_482, retro_fcat_549, retro_fcat_649,
Microcebus murinus	ENSMICG00000009792	1 retrocopy	retro_mmur_744,
Mustela putorius furo	ENSMPUG00000002350	2 retrocopies	retro_mputfur_1406, retro_mputfur_166,
Otolemur garnettii	ENSOGAG00000015416	1 retrocopy	retro_ogar_1394 ,