RetrogeneDB ID: retro_ogar_1277

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873541.1:11044985..11045775(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000026288
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: B4USZ4_OTOGA
• Ensembl ID: ENSOGAG00000002699
• Aliases: None
• Description: None

Sequence

>retro_ogar_1277
ACCCTCCAATATGTTCCAGAGGATTCTAAAGACAAAGTTATCTCAGATGAAGATGTCCTAGGAACATTACTGAAAGTTTT
CCAGGCTCTATTCTTAAATGATTTTGATCAGCAATCAGAAATCTTGACTTTGCTTCCAGAACCTGTTAAATCAAAACATC
AAGACCTACTGGCACTCGAACATCAAAGGGTGAAACAGCTTGAAAACAGACATCAACTGCAAAGTATCTTTAAACCAGAA
GAAATTCTTTATAAGACATTGGGTTTCAGTGTTGCTCAAGCAACTAGCTCTTTGGTTTCCACTGGACAAGGTGTCTTCGT
TACTAAAGGATTGGTACCAAAAGGCGCAGTTGTATCTATGTATCCTGGTACAGTATATCAAAAGTATGAGCCAGTCTTTT
TCCAGTCCATTGGAAATCCATTTATTTTTAGATGCCTGGATGGGGCACTGAGAATGACAAAGGGATATCAAAAGTTGTGT
ACAGATCTTGCAATGGGAGGGATCAACTTGGCCCTTTAAAAATGAGTGATAGGACATGGCTAACATCCGAAATTATAATC
CCCTGGCTGTAGGACAGTATGTCAACAGTTGTCCAAATGACAGAGCAGCTAATGTCTGTTATCAGGAATTTGATGTGCCT
GCTGTTTTCCCTATGGAACTGAAGCAGTATCTTCCAAACATTGCCTATAGCTATGAAAAATTGAGCCCACTTCGATGTGT
CATCCTTGTCGCCCCTAGGGACATCAAACAAGGAGAAGAGCTCTTTTCAAATTACTACACAATCATCAGC

Alignment

ORF - retro_ogar_1277 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.18 %
• Parental protein coverage: 91.72 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TLRYVPEDSKDKVISDEDVLGTLLKVFQALFLNDFDKQSEILTLLPEPVKSKYQDLLALEHQRVKQLENR
          TL.YVPEDSKDKVISDEDVLGTLLKVFQALFLNDFD.QSEILTLLPEPVKSK.QDLLALEHQRVKQLENR
Retrocopy TLQYVPEDSKDKVISDEDVLGTLLKVFQALFLNDFDQQSEILTLLPEPVKSKHQDLLALEHQRVKQLENR

Parental  HQLQNIFKPEEILYKTLGFSVARATSSLVSAGKGVFVTKGLVPKGAVVSMYPGTVYQKYEPVFFQSIGNP
          HQLQ.IFKPEEILYKTLGFSVA.ATSSLVS.G.GVFVTKGLVPKGAVVSMYPGTVYQKYEPVFFQSIGNP
Retrocopy HQLQSIFKPEEILYKTLGFSVAQATSSLVSTGQGVFVTKGLVPKGAVVSMYPGTVYQKYEPVFFQSIGNP

Parental  FIFRCLDGVLIDGNDKGISK-VVYRSCNGRDRLGPLKMCDSTWLTSEI-HNPLALGQYVNNCSNDRAANV
          FIFRCLDG.L.....KG..K.VVYRSCNGRD.LGPLKM.D.TWLTSEI..NPLA.GQYVN.C.NDRAANV
Retrocopy FIFRCLDGAL--RMTKGYQK<VVYRSCNGRDQLGPLKMSDRTWLTSEI<YNPLAVGQYVNSCPNDRAANV

Parental  CYQEFDVPAVFPIELKQYLPNIAYSYDKLSPLRCVVLVALRDIKQGEELFSNYYTIVS
          CYQEFDVPAVFP.ELKQYLPNIAYSY.KLSPLRCV.LVA.RDIKQGEELFSNYYTI.S
Retrocopy CYQEFDVPAVFPMELKQYLPNIAYSYEKLSPLRCVILVAPRDIKQGEELFSNYYTIIS

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_1277 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	ENSOGAG00000002699	1 retrocopy	retro_ogar_1277 ,