RetrogeneDB ID: retro_ogar_362

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873520.1:71166998..71168169(+)
• Located in intron of: ENSOGAG00000012563

Retrocopy information

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

Parental gene information

• Parental gene symbol: TADA3
• Ensembl ID: ENSOGAG00000034225
• Aliases: None
• Description: transcriptional adaptor 3 [Source:HGNC Symbol;Acc:19422]

Sequence

>retro_ogar_362
CAACTGAAAGACTGCCTGTTGCAGTTCCATGACTTCAAGTCTGTGGACCACCTGAAGGTCTGTCCCCATTACACTACATG
CTCTGAGGATGATGGCATCAGCATCGAGGAGCTGGACGCCCTAGAGCTGGAGCATGAGACCCTGTTCTCTGCCATGCACG
TGCTTGAAGCTGAAACCCAGATCCTCAATGACTGACAAGATAAGAAGAGTGACCATTGATTCCTGAAGCTGGGTCAAGAA
CATGAACTTGGAGCTTCCCCCAAACATGGGAAGCTCAAGCAGCAGAAACTGGAAGGGAAGGCAGGACATGGGCAGGCTCT
GGCCCGAGGTGGCCCAAATCCAAAAACCTTCAGCCCAAGATTCAAGAATATGCATTCAGTGGTGATGCCACTGACATGCC
TTGGATCCCTAAGAATGATGCCCTCAACAGGTTCTGGGCTTTGGTGGAGCCCTACTGTGCTGATATCATTAGTGAAGAGG
TGTGCACACTAGAGAAGCTGCTGAAACCCCCAGAAGATGAGGGTGAACATTATAAGATCCCACTGCTGGGGAACCACTAC
TCCCAGCACTGGGCCCTGAACACCTGCTAGAGAAGCAGAAGGATGGGGCTCAGGCAGTGGCTATTGCTAATAAGAAAGAA
CTCATGGGGCTGATGACGGAACCAAATACTAATGATGTGGATGCCCTGCTGAAGAAGTCTGAGGCCCAGTATGAACAGCT
GGAGGATGGGTACCCCTCTGGTACCCTGACACATCACCTCTTGCAGGCCCCAGTGGAGGAAAGTTATTACTTCTGCTGCA
GAGGATTCTCCTATTCCAGATGTGTCCGGGAAAGAACTGGCTCAATGGGCCAAGCACCTCTTCTTGCAATCAGAATAGCT
GTTCAGTGTGCTGCATGCCAAGTTCCTGGAGAGATGCATCATGGAGGAGCTGTTGCCCAGGGTCTTTTGGAGTCTGGGGA
CCACTGAGGAGAAGACTCAGATGATGAGGTCCTCACTGAGCAGTGCAAACAGGGGACCAAGCTGATGACAATTAGTGCCC
ACAACTACACCAAGAAACATGACCTGATGAGACTGGCAAAGGAGGAGGTGAGCCAGCAGGAACTGAGGCAGTGGCTCTAC
ATAGCAGTCAGTGAGGTCATGGACACTTTTCAGAAGATAATGGCTGTGCAA

Alignment

ORF - retro_ogar_362 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.55 %
• Parental protein coverage: 92.59 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  ELKDCPLQFHDFKSVDHLKVCPRYTAVLARSEDDGIGIEELDTLQLELETLLSSASRRLRVLEAETQILT
          .LKDC.LQFHDFKSVDHLKVCP.YT.....SEDDGI.IEELD.L.LE.ETL.S.......VLEAETQIL.
Retrocopy QLKDCLLQFHDFKSVDHLKVCPHYTTC---SEDDGISIEELDALELEHETLFSA----MHVLEAETQILN

Parental  DWQDKKGDRRFLKLGRDHELGAPPKHGKPKKPKLEGKAGHGP-GPGPGRPKSKNLQPKIQEYEFTDDPID
          D.QDKK.D..FLKLG..HELGA.PKHGK.K..KLEGKAGHG..G.GP..PKSKNLQPKIQEY.F..D..D
Retrocopy D*QDKKSDH*FLKLGQEHELGASPKHGKLKQQKLEGKAGHGQ<GSGPRWPKSKNLQPKIQEYAFSGDATD

Parental  VPRIPKNDAPNRFWASVEPYCADITSEEVRTLEELLKPPEDEAEHYKIPPLGKHYSQRWA-QEDLLEEQK
          .P.IPKNDA.NRFWA.VEPYCADI.SEEV.TLE.LLKPPEDE.EHYKIP.LG.HYSQ.WA..E.LLE.QK
Retrocopy MPWIPKNDALNRFWALVEPYCADIISEEVCTLEKLLKPPEDEGEHYKIPLLGNHYSQHWA<PEHLLEKQK

Parental  DGARAAAVADKKKGLMGPLTELDTKDVDALLKKSEAQHEQPEDGCPFGALTQRLLQALVEEN-IISPMED
          DGA.A.A.A.KK..LMG..TE..T.DVDALLKKSEAQ.EQ.EDG.P.G.LT..LLQA.VEE..I.S..ED
Retrocopy DGAQAVAIANKKE-LMGLMTEPNTNDVDALLKKSEAQYEQLEDGYPSGTLTHHLLQAPVEES>ITSAAED

Parental  SPIPDMSGKE-SGADG-ASTSPRNQNK-PFSVPHTKSLESRIKEEL-IAQGLLESEDRPAEDSEDEVLAE
          SPIPD.SGKE..G..G..STS..NQN...FSV.H.K.LE..I.EEL..AQGLLES.D...EDS.DEVL.E
Retrocopy SPIPDVSGKE<TGSMG<PSTSSCNQNS<LFSVLHAKFLERCIMEEL<VAQGLLESGDH*GEDSDDEVLTE

Parental  LRKRQAELKALSAHNRTKKHDLLRLAKEEVSRQELRQRVRMADNEVMDAFRKIMAAR
          ..K....L...SAHN.TKKHDL.RLAKEEVS.QELRQ....A..EVMD.F.KIMA..
Retrocopy QCKQGTKLMTISAHNYTKKHDLMRLAKEEVSQQELRQWLYIAVSEVMDTFQKIMAVQ

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_362 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 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000005324	2 retrocopies	retro_cfam_2011, retro_cfam_2106,
Equus caballus	ENSECAG00000018186	1 retrocopy	retro_ecab_601,
Mus musculus	ENSMUSG00000048930	2 retrocopies	retro_mmus_1999, retro_mmus_3497,
Otolemur garnettii	ENSOGAG00000034225	1 retrocopy	retro_ogar_362 ,
Rattus norvegicus	ENSRNOG00000008597	2 retrocopies	retro_rnor_1273, retro_rnor_1479,