RetrogeneDB ID: retro_ogar_2952

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873688.1:815552..816544(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NRF1
• Ensembl ID: ENSOGAG00000012755
• Aliases: None
• Description: nuclear respiratory factor 1 [Source:HGNC Symbol;Acc:7996]

Sequence

>retro_ogar_2952
AGTTTGCTCTGGCAGAACACGCCCCTGACACAGGAGGTTAATTCAGAACTTCTACCTCTTAACCTAATCCTTGGAATTCC
AGTCTGTGTGGACAAAACAGCCTAGACCAAGCTTCAGGCCTTTATTTCAGAGATGCTTGAGTACTCCACAGGTCCAGGAA
AGCTAGGCTGGGGGTAAGAAAGCTGCAAGCCCATTTAGTGGCCTGAAGACATCCCATGGGCAAATGTCCAGAGCAATGTT
CACTCAGAAGAGCAAAAGCAGAGGGTTTTGTGGACCCAGGTACTGCTGACCATAGCTTAAACTATCATAAACAGCATGGA
CTAGATCTTTTACATGCTTTTGAAGATCAGCAAACACAGACACAGGTCACAACTACACATAGTAAGTAGAGCCCATCTTG
TACCATCACAGACCATGGTCTAGTCATTTAGTAACCCTGATGACACTGTCTCACTTATCCAGGTTGGTACATGCAACAGT
AGCCACATTGGCTGATGTTTCAGAATTACCAACAAAGTCTCTGTTGCCCAGGTGAATTATTCTGCTGTGGCCAATGGAGA
GGTGGAACAAAATCAGGCCTTGTTACAGGAAGGTGAGGTAACCATCCGAGGAAGCAAGCAATAGGGGCCACCCAGGCAGT
GGCTGAGGCTACAGTGGCAGTTTCCCAGGAGATGCGACAAGGATCTATAGTCACCATGGTACTTAACAGTGAAGGTGCCC
CCCACACTGTTACCACCCTGGCTGAGGCCACCTTACAAGGTGGGGGACAGATCATCTTGTCTAGGGAAAGTGCAGCAGCT
GTCAGAGCAGTTACTGGAGTCCAAGGTGCTAAGGGTCTGGTCCAGATCCCTGTGAGCATGTGCCACACTGTGCTAACCAG
CCTGGCCCAGGCCAATGGGCCAGTGCAGGTACCCACAATCCTGTGACCACCAGGATATCAAACAGCACAGTCACCATGAT
GACCACGCTGTGGAGTGGTGACATTGGAACAG

Alignment

ORF - retro_ogar_2952 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.6 %
• Parental protein coverage: 66.6 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  SALAEHAPAPQEVNSELPPLT-IDGIPVSVDKMTQAQLRAFIPEMLKYSTGRGKPGWGKESCKPIWWPED
          S.L....P..QEVNSEL.PL..I.GIPV.VDK.....L.AFI.EML.YSTG.GK.GWG.ESCKPI.WPED
Retrocopy SLLWQNTPLTQEVNSELLPLNLILGIPVCVDKTA*TKLQAFISEMLEYSTGPGKLGWG*ESCKPI*WPED

Parental  IPWANVRSDVRTEEQKQRVSWTQALRTIV-KNCYKQHGREDLLYAF-EDQQTQTQATTTH-SIAHLVPSQ
          IPWANV.S.V..EEQKQRV.WTQ.L.TI...N..KQHG..DLL.AF...Q......TT...S.AHLVPSQ
Retrocopy IPWANVQSNVHSEEQKQRVLWTQVLLTIA<LNYHKQHGL-DLLHAFEDQQTQTQVTTTHS>SRAHLVPSQ

Parental  TVVQTFSNPDGTVSLIQVGTGATVATLADASELPTTVTVAQVNYSAVADGEVEQNWATLQGGEMTIQTT-
          T.V..FSNPD.TVSLIQVGT................V.VAQVNYSAVA.GEVEQN.A.LQ.GE.TI....
Retrocopy TMV*SFSNPDDTVSLIQVGT-CNSSHIG*CFRITNKVSVAQVNYSAVANGEVEQNQALLQEGEVTIRGS<

Parental  QASEATQAVASLAEAAVAASQEMQQGATVTMALNSEAAAHAVATLAEATLQGGGQIVLSGETAAAVGALT
          QA..ATQAVA...EA.VA.SQEM.QG..VTM.LNSE.A.H.V.TLAEATLQGGGQI.LS.E.AAAV.A.T
Retrocopy QAIGATQAVA---EATVAVSQEMRQGSIVTMVLNSEGAPHTVTTLAEATLQGGGQIILSRESAAAVRAVT

Parental  GVQDANGLVQIPVSMYQTVVTSLAQGNGPVQVAMA-PVTTRISDSAVTM-DGQAVE-VVTLEQ
          GVQ.A.GLVQIPVSM..TV.TSLAQ.NGPVQV....PVTTRIS.S.VTM.D..AVE.VVTLEQ
Retrocopy GVQGAKGLVQIPVSMCHTVLTSLAQANGPVQVPTI<PVTTRISNSTVTM<DDHAVE<VVTLEQ

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_2952 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	ENSOGAG00000012755	2 retrocopies	retro_ogar_258, retro_ogar_2952 ,