RetrogeneDB ID: retro_ogar_3438

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873838.1:62714..63344(+)
• 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_3438
ACAGTTTTTCCATCTCAAATCACTAATGAGCTTGAGTCACTGATAATAGTGAAGAAACTTTTGCTACTTTGATCTCATGT
ATAACATACCTAAGGGGCCTGTTTCCAGAGAGCTCTTAGGGAGAGCACCATTTGAATGACCTCATCTTAAAAATCCTTCA
AGAAGACAAAAAATGTCCCGGATCACTGCATATTATCAAATGGGTTGAAAGTTGTTTTGATGCTTTGGAAAAGAGATTCT
TACACATGGCAGTACTTATTCTTTGTACAAGTCCCAAGGAACCTGAGAAAGTGACTAAAATATACCAGTTAAATTCAAAT
TCACAAAAGAAGAGCTACCATGGATTTCGACAGAAGCACCACAAGCTTTGAAAGTGTGACAAACAGTGAAGATGTTAAGA
AAGCTAGTGTTCTACTGATCAGTAAATTGTATGTAGTGATGTAGAACCTTGGAACTCTTTCTAATTATATTATACTTACT
ATGAAACTCCACTACTATAATGCAGTAGTCCCACATGTTTACCAACCCCCTGGTTTTAAAAAAGGGGTAAATTCACACTT
TCTGCTGTTTGATGGGGAGCCTGTCAACCTGCAAATGGGCTTGGTCTCCACTGGCTTTCATGAACATAAA

Alignment

ORF - retro_ogar_3438 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.84 %
• Parental protein coverage: 82.1 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TVFPSQITNEHESLIMVKKL-FATSISCITYLRGLFPESSYGERHLDDLSLKILREDKKCPGSLHIIKWI
          TVFPSQITNE.ESLI.VKKL.FAT.ISCITYLRGLFPESS.GE.HL.DL.LKIL.EDKKCPGSLHIIKW.
Retrocopy TVFPSQITNELESLIIVKKL<FATLISCITYLRGLFPESS*GEHHLNDLILKILQEDKKCPGSLHIIKWV

Parental  QGCFDALEKRYLQMAVLTLYTNPKEPEKVTEIYQF-KFKYTKEG-AIMDFDSSTTSFESGTNSEDVKKAS
          ..CFDALEKR.L.MAVL.L.T.PKEPEKVT.IYQ..KFK.TKE..A.MDFD.STTSFES.TNSEDVKKAS
Retrocopy ESCFDALEKRFLHMAVLILCTSPKEPEKVTKIYQL<KFKFTKEE<ATMDFDRSTTSFESVTNSEDVKKAS

Parental  VLLIRKLYVLMQNLGPLPNDVVLTMKLHYYNAVTPNDYQPPGFKEGVNSHFLLFDGEPVNLQVGLVSTGF
          VLLI.KLYV.M.NLG.L.N...LTMKLHYYNAV.P..YQPPGFK.GVNSHFLLFDGEPVNLQ.GLVSTGF
Retrocopy VLLISKLYVVM*NLGTLSNYIILTMKLHYYNAVVPHVYQPPGFKKGVNSHFLLFDGEPVNLQMGLVSTGF

Parental  HSMK
          H..K
Retrocopy HEHK

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_3438 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 ,