RetrogeneDB ID: retro_ogar_3422

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873827.1:156393..157032(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HORMAD2
• Ensembl ID: ENSOGAG00000015658
• Aliases: None
• Description: HORMA domain containing 2 [Source:HGNC Symbol;Acc:28383]

Sequence

>retro_ogar_3422
ACAGTTTTTCCATCTCAAATCACTGATGAGCTGGAGTCACTGATAATGGTGAAGAAACTTTTTGCCACTTCTATCTCATG
TATAACATATCTAAGGGGCCTGTTTCCAGAGAGCTCTTAGAGAGAGCACCATTTGGATGACCTCAGCTTAAAAATCCTTC
AAGAAGACAAAAAATTTCCTGGATCACTACATATTATCAAATGGGTTCAAAGTTGTTTTGATGCTTTGGAAAAGAGATGC
TTACACATGGCAGTACTTACACTCAGCAACTCCCAAGGAACCTGAGAAAGTGACTAAAATATATGAGTTCAAATTCAAAT
TCACAAAAGAAGGAACTACCATGGATTTTGACAAAAGCACTACAAGCTTTGAAACAGTGAAAAACAATGAAGATACTAAG
AAATCTAGTGTTCTACTGATCCGTAAATTGTATGTACTAATGAAGAATCTTGGAACTCTTTCTAATTAGGTTATACTTAC
TATGAAACTCCACTACTATAATGCAGTGACCTCCATGATTACCAACCCCCTGGTTTTAAAAAAGGGGCAAATTCACACTT
TCTGCTGTTTGATGGGGAGGCTGTCATACTGCAAATGGGCTTGGTCTCCACTGGCTTTCATGAAAGTAAAAGTCGTATC

Alignment

ORF - retro_ogar_3422 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.96 %
• Parental protein coverage: 83.27 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TVFPSQITNEHESLIMVKKLFATSISCITYLRGLFPESSYGERHLDDLSLKILREDKKCPGSLHIIKWIQ
          TVFPSQIT.E.ESLIMVKKLFATSISCITYLRGLFPESS..E.HLDDLSLKIL.EDKK.PGSLHIIKW.Q
Retrocopy TVFPSQITDELESLIMVKKLFATSISCITYLRGLFPESS*REHHLDDLSLKILQEDKKFPGSLHIIKWVQ

Parental  GCFDALEKRYLQMAVLTLYTN-PKEPEK-VTEIYQFKFKYTKEGAIMDFDSSTTSFESGTNSEDVKKASV
          .CFDALEKR.L.MAVLTL....P....K.VT.IY.FKFK.TKEG..MDFD.STTSFE...N.ED.KK.SV
Retrocopy SCFDALEKRCLHMAVLTLSNS<PRNLRK<VTKIYEFKFKFTKEGTTMDFDKSTTSFETVKNNEDTKKSSV

Parental  LLIRKLYVLMQNLGPLPNDVVLTMKLHYYNAVTP-NDYQPPGFKEGVNSHFLLFDGEPVNLQVGLVSTGF
          LLIRKLYVLM.NLG.L.N.V.LTMKLHYYNAVT...DYQPPGFK.G.NSHFLLFDGE.V.LQ.GLVSTGF
Retrocopy LLIRKLYVLMKNLGTLSN*VILTMKLHYYNAVTS<HDYQPPGFKKGANSHFLLFDGEAVILQMGLVSTGF

Parental  HSMKVKV
          H..K...
Retrocopy HESKSRI

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_3422 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000213	1 retrocopy	retro_etel_240,
Macaca mulatta	ENSMMUG00000004713	1 retrocopy	retro_mmul_1836,
Otolemur garnettii	ENSOGAG00000005640	1 retrocopy	retro_ogar_1908,
Otolemur garnettii	ENSOGAG00000015658	3 retrocopies	retro_ogar_2155, retro_ogar_3422 , retro_ogar_3438,