RetrogeneDB ID: retro_ogar_802

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873528.1:4150813..4151635(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DDX47
• Ensembl ID: ENSOGAG00000003748
• Aliases: None
• Description: DEAD (Asp-Glu-Ala-Asp) box polypeptide 47 [Source:HGNC Symbol;Acc:18682]

Sequence

>retro_ogar_802
AGCCCCAAGGAGCATGAAGCTCCCCCGCTAGCAGTGGAGATGGAGGAAATTAAAACATTTAAAGACTTGTGTGTAACAGA
TGTATTGTGTGAAGCTTGTGACCAGTTGGGATGGGCAAAGCCCACCAAAATTCAGATCAAAGCTATTCCTTTGGCCTTAC
AAGGTTGTGATATCATTGGGCTGGCAGAAACTGGCTCTGGAAAAACAGGGGCTTTTGCTTTGCCCATTATGAATGCACTG
CCAAGACACCCCAGCTTTTATTTGCCCTAGTTCTCACTCCCACTCCGGAGTTGGCTTTTCAGATCTCAACAGCAGTTTGA
AGCCCTGGGGTCCTCTATTGGAGTATAGTGTGCTGTGATTGTGGGTGGAATTGAAATGTCTCAATCTCTGGCCCTGGCAA
AAAAATCACATATAGTAATATCAACTCTGGGTCAACTAATTGACTGTTTGGATAATACAAAAGGCTTCAACTTAAGAGCT
CTCAAATACTTGATCATGGATGAAACTGACCAAATATTGAACATGGATTTTGAGACAGAGGTTGACAAGATCCTCAAAGT
GATTCCCTGAGATCAGAAAACATTTCTCTTCTCTGCTAACATGGCCAAGAGGGTGCAAAAGCTTGAATGAGCAGCTCTGA
AGAATCCTGTGAAATACCCCGTTTCCTCTAAATACCAGACAGTTGGGAAATTACAGCAATTCTATCTTTTTATTCCTTCT
AAATTCAAGGATACCTACCTAGTCTATATTCTAAATGAATTGGCTGAAAACTCCTGTAGCACCTGTAACAATACTCAGAA
CAACTTTGCTAGTCTGAAATCT

Alignment

ORF - retro_ogar_802 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.14 %
• Parental protein coverage: 61.86 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  APGEHEAPQPAAEEEEIKTFKDLGVTDVLCEACDQLGWAKPTKIQIEAIPLALQGRDIIGLAETGSGKTG
          .P.EHEAP..A.E.EEIKTFKDL.VTDVLCEACDQLGWAKPTKIQI.AIPLALQG.DIIGLAETGSGKTG
Retrocopy SPKEHEAPPLAVEMEEIKTFKDLCVTDVLCEACDQLGWAKPTKIQIKAIPLALQGCDIIGLAETGSGKTG

Parental  AFALPILNAL-LETPQRLFALVLTPTRELAFQIS-EQFEALGSSIGVQCAVIVGGIDSMSQSLALAKKPH
          AFALPI.NAL...TPQ.LFALVLTPT.ELAFQIS..QFEALGSSIGV.CAVIVGGI..MSQSLALAKK.H
Retrocopy AFALPIMNAL<AKTPQLLFALVLTPTPELAFQIS>QQFEALGSSIGV*CAVIVGGIE-MSQSLALAKKSH

Parental  VVIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKVIPRDRKTFLFSATMTKKVQK
          .VI.T.G.LID.L.NTKGFNLRALKYL.MDE.D.ILNMDFETEVDKILKVIP.D.KTFLFSA.M.K.VQK
Retrocopy IVISTLGQLIDCLDNTKGFNLRALKYLIMDETDQILNMDFETEVDKILKVIP*DQKTFLFSANMAKRVQK

Parental  LQRAALKNPVKCAVSSKYQTVEKLQQYYLFIPSKFKDTYLVYILNELAGNSFMIFCSTCNNTQRTALLLR
          L..AALKNPVK..VSSKYQTV.KLQQ.YLFIPSKFKDTYLVYILNELA.NS....CSTCNNTQ.....L.
Retrocopy LE*AALKNPVKYPVSSKYQTVGKLQQFYLFIPSKFKDTYLVYILNELAENS----CSTCNNTQNNFASLK

Parental  N
          .
Retrocopy S

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_802 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000003748	2 retrocopies	retro_ogar_2780, retro_ogar_802 ,
Ictidomys tridecemlineatus	ENSSTOG00000027266	1 retrocopy	retro_itri_375,
Tupaia belangeri	ENSTBEG00000013697	1 retrocopy	retro_tbel_2420,