RetrogeneDB ID: retro_ogar_1098

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873535.1:21575697..21576640(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000028662
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000032498
• Aliases: None
• Description: None

Sequence

>retro_ogar_1098
GTCTTTCGAAACCAGGGCCCTCTCAAGACTCCTTGCCATGCAGAAGTATGTTTCATGACTTGAATCCAGGAGGTACTGCC
CCCCGACCACCACTCCCAGGCCACCTGGTATGTATCCAGGAGTCCCTGTGCCAACTGTGCAAATCTTATTGTTCACTTTC
TGGCCATGCACAGAAGGGTGACCCTGACCATCTTCACTACCCACCTCAACTGCTTCTGGGAATCAGATTACCAGCAGGGG
CTTCTCAGGATGGATCAGGAAGGGGTCCAGCTGCACATCGTGGGTTATGAAGAATTTGAATACTGTTGGGACAACTTTGT
GTACAACCAGAGAAAGCAATTCGTGCCTTGGAATGGACTGAATGAAAATTATGAGTTCCTGGTCCTCAAGCTGGAGGAGA
TTCTCAGAAGCCCTTTGGATAGGATGAGTCAAAAAGAATTCAACATTCACTTTCAGAACCGGCTGCGGGCTTATGAGAAA
AGCACCTGGCTGGGCTTTGAGGTGGAAACAACCAAGTCACCTGTCACCATCCACAAAGGAGTCTTTGGAAACCAGCGCCC
TCCCAAGGCTCCTTGCATGCAGAAGTATGCTTCCTCACTTGGTTCCAGGAGGTGCTGTCCCCTGACCTCCACTACCAAGT
CACCCAGTACATGTCCTGGAGTCCCTGCACTGACTGTGCAGATCTTGTGGCTAATTTTCTGGCTAAATACAGAAATATGA
GCCTGACCATTTTTGCTGCCCGCCTCTAGTACCACCGGACCCAGAAATGCATAGGGGACTTCGCAGGATATATCAGGAAG
GGGCAACCATGGATACCATGTCGGTTATAGAATTTGAATACTGTTGGGACAACTTTGTGTACAACCAGAGAAAGCAATTC
ATGCCTTGGAATGGATTGAATGAAAATTATGAATTCCTGGTCCCCAAGCTAGAGGAGATTCTC

Alignment

ORF - retro_ogar_1098 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.23 %
• Parental protein coverage: 82.41 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VLLSQGPVKTPCHAEECFLTWIQGVLPPDHHYHVTWYVSRGPCANCANLIVHFLAMHRRVTLTIFAAHLN
          V...QGP.KTPCHAE.CF.T.IQ.VLPPDHH...TWYVSR.PCANCANLIVHFLAMHRRVTLTIF..HLN
Retrocopy VFRNQGPLKTPCHAEVCFMT*IQEVLPPDHHSQATWYVSRSPCANCANLIVHFLAMHRRVTLTIFTTHLN

Parental  FFWESDFQQGLLRMDQEGVQLHIMGYEEFEYCWDNFVYNQRKQFVPWNGLNENYEFMVSTLEDILRSPLD
          .FWESD.QQGLLRMDQEGVQLHI.GYEEFEYCWDNFVYNQRKQFVPWNGLNENYEF.V..LE.ILRSPLD
Retrocopy CFWESDYQQGLLRMDQEGVQLHIVGYEEFEYCWDNFVYNQRKQFVPWNGLNENYEFLVLKLEEILRSPLD

Parental  RIRQKDFSIHFRNSLWLDDKSTWLCFEVKRTKSPVPLYRGVFRNQSPPKTPC-HAEVRFFTWLQD-LPPD
          R..QK.F.IHF.N.L....KSTWL.FEV..TKSPV....GVF.NQ.PPK.PC.HAEV.F.TW.Q..L.PD
Retrocopy RMSQKEFNIHFQNRLRAYEKSTWLGFEVETTKSPVTIHKGVFGNQRPPKAPC<HAEVCFLTWFQEVLSPD

Parental  FCCQFTWYLSWSPCADCADLVANFLAKHRNVSLTIFVARLYYYR-DPEMHRGLRRMYQEGANVDIMSVIE
          ...Q.T.Y.SWSPC.DCADLVANFLAK.RN.SLTIF.ARL.Y.R.DPEMHRGLRR.YQEGA..D.MSVIE
Retrocopy LHYQVTQYMSWSPCTDCADLVANFLAKYRNMSLTIFAARL*YHR<DPEMHRGLRRIYQEGATMDTMSVIE

Parental  FEYCWDNFVYNQGKQFVPWNGLNENYEFLVPRLQEIL
          FEYCWDNFVYNQ.KQF.PWNGLNENYEFLVP.L.EIL
Retrocopy FEYCWDNFVYNQRKQFMPWNGLNENYEFLVPKLEEIL

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_1098 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000032498	2 retrocopies	retro_ogar_1098 , retro_ogar_1410,