RetrogeneDB ID: retro_ogar_837

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873529.1:9702647..9703576(+)
• Located in intron of: ENSOGAG00000005608

Retrocopy information

• Ensembl ID: ENSOGAG00000028048
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000025143
• Aliases: None
• Description: None

Sequence

>retro_ogar_837
CAGGTTATCAAGTGCAAGGCTGCAGTTGCCTAGAAGGCTGGAAAGCCTCTCTCCATAGAGGAGATAGAGGTGGCACCCCC
AAAGGCTCATGAAGTTTGAATTAAGATCATTGCCACTGTAGTTTGTCCACTGATGCCTACACGCTGAGTGGAGCTGATCC
ACTGGGTATTTCCTAGTGATCTTGGGACATGAAGGTGCTGGGAATCGTAGAAAGTATTGGCGACGGGGTTACTAAGCTGA
AGGCAGGTGATACAGTCATCCCACTTTGTGTCCCACAGTGTGGAGAATGCAAATTTTGTTTTAATCCTAAAACAAATTTT
TGCCAGAAGGTAAGAGTCACTCAAGGGAAAGGATTAATGCCAGATTGTACTAGCAGATTTACTTACAAAGGAAAGACAAT
GTTATATTACATGGGAACCAGCTCCTTTTCTGAATATACAGTTGTGACTGATATCTCTGTTGCTAAAACAGATCCTTTAG
CACCTTTGGATAAAGTCTGCCTTCTGGGTTGTGGCATTTCAACTGGTTATGGCACTGCTGTGAACACTGCTAAGGGGGAG
CCTGGCTCTACTTGTGCCATCTTTGGCCTGGGAGGAGTTCAACTGGCTGTGATCATGGGCTGTAAAGTGGTTGGTGCATG
TTGGATCATTAGCATGGACATCAATAAAAATAAATTTGCAAAGGCCAAAGAGTTTGGAGTCTCTGAATGTGTTAACCCCC
AGGATTTCAGTAAATCTACCCAGGAGGTGCTTGCTGGGATGAATGATGGAGGGGATGGACTATTCCTTTGAGTGTATTGG
TAACGTGAAGGTCACAAGAGCAGCACTTGAGGCGTGCCACAAAGGTGGGGCATCCATGTGGTGGTTGGAGTAGCTGTTTC
AGGTGAAGAGATATCTACCCGTCCGTTCCAGCTGGTTACAGGTTGTACA

Alignment

ORF - retro_ogar_837 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.56 %
• Parental protein coverage: 82.18 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  KVIKCKAAVLWETSKPFSIEEVEVAPPKAHEVRIKMVAAGIC-RSDDHAVNGT-MYVPFP-VILGHEAA-
          .VIKCKAAV.....KP.SIEE.EVAPPKAHEV.IK..A...C...D.....G......FP.VILGHE.A.
Retrocopy QVIKCKAAVA*KAGKPLSIEEIEVAPPKAHEV*IKIIATVVC<STDAYTLSGA>IHWVFP>VILGHEGA>

Parental  GIVESIGEGVTTVKPGDKVIPLFTPQCGKCRVCKHPEGNFCLKSKLSQNQGSLQDGTTRFTCRGKPVNHF
          GIVESIG.GVT..K.GD.VIPL..PQCG.C..C..P..NFC.K....Q..G...D.T.RFT..GK.....
Retrocopy GIVESIGDGVTKLKAGDTVIPLCVPQCGECKFCFNPKTNFCQKVRVTQGKGLMPDCTSRFTYKGKTMLYY

Parental  LGISTFSQYTVVDEMSVAKIDAASPLEKVCLIGCGFTTGYGSAVNKIQVTRGSTCAVFGLGGVGLSVIIG
          .G.S.FS.YTVV...SVAK.D...PL.KVCL.GCG..TGYG.AVN......GSTCA.FGLGGV.L.VI.G
Retrocopy MGTSSFSEYTVVTDISVAKTDPLAPLDKVCLLGCGISTGYGTAVNTAKGEPGSTCAIFGLGGVQLAVIMG

Parental  CKAAGASRIIAVDINKDKFAKAKEAGATECINPQDYKKPIQEVIAEMTDG-GVDFSFEVIGRLDTMMAAL
          CK..GA..II..DINK.KFAKAKE.G..EC.NPQD..K..QEV.A.M.DG.G.D.SFE.IG......AAL
Retrocopy CKVVGACWIISMDINKNKFAKAKEFGVSECVNPQDFSKSTQEVLAGMNDG>GMDYSFECIGNVKVTRAAL

Parental  LCCH-EACGTSVVVGVPPYSQNLSMNPILLLLGRT
          ..CH....G..VVVGV.......S..P..L..G.T
Retrocopy EACH<QRWGIHVVVGVAVSGEEISTRPFQLVTGCT

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_837 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000025143	1 retrocopy	retro_ogar_837 ,