RetrogeneDB ID: retro_ogar_3113

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873720.1:2098216..2099167(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000034136
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RNF41
• Ensembl ID: ENSOGAG00000001525
• Aliases: None
• Description: ring finger protein 41 [Source:HGNC Symbol;Acc:18401]

Sequence

>retro_ogar_3113
ATGGGGTATGATGTGACCCGTTTCCAGGGGGATGTTGATGAAGACCTTATCTGCCCTATCTGCAGTGGTGTCTTGGAGGA
CCCAGTACAGATATCCCACTGCGAGCATGCTTTCTGTAACGCCTGCATTACCCAGTGGCTCTCTGAACAACAGACGTGTC
CGGTGGACCGTAGCATTGTGACGTTTGCCCACCTGTGCCCGGTACCTCGGATCACCCGGAACATGTTGTCGAAGCTGAAG
ATTGCCTGTGACAATGCTGAGTTCGGTTGCACTGCCTTTGTTCAGCTTGATAGCCTCATGTCCCACCTCAGCGAGTGTGA
ACACAACCCGAACCGGCCTATGACCTTTGCACAGGGCTGCGCCCTGGAGACATCCAAATATAAGGTACCAAACCACAATT
GCATCAAGAACCTGTGCTCAGTGGTACAGCGGCAGCAGGCACGCATCATAGAGCTAGAGACGACGTCAGCAGAACACAAA
CACCAGCTGATAGAGCAAAAGCGAGATATCCAGCACCTAAGGGCATACGTGCGTGCGCTCCACAGCCTCAGCCCCAATCT
TCAGAATGTGGAGGAGACAGTTGTACACAATGAGACCCTAGAGTGGGTGAACTCCCTTCATTCAGCAAGAGTGACCCGCT
GGGGAGGGATGATCTCAACCCCAGACGCTGTTCTCCAGGCAGTAATCAAGCACTCCCTGATACAGAGCAGCTGTCCCGCC
TCTATTACCAACCAGCTGGTTGAAAATTCCCATGAGCGTAACTGGCCTCCTGGTCTGGCCACACTAGAGACAAGACATAA
GAATCGGCGCCACTATGAGAACTACGTGGTCAAGCGCATCCCTGGCATGCAGGCTATTGTCATGATGGCCTGTGAAAACC
AGCATATGGGAGAAGACATGGTCCGAGAACCAGGCCTTGTCATTATGTTTGCTCATGGTGTAGAGGAGATA

Alignment

ORF - retro_ogar_3113 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.55 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGYDVTRFQGDVDEDLICPICSGVLEEPVQAPHCEHAFCNACITQWFSQQQTCPVDRSVVTVAHLRPVPR
          MGYDVTRFQGDVDEDLICPICSGVLE.PVQ..HCEHAFCNACITQW.S.QQTCPVDRS.VT.AHL.PVPR
Retrocopy MGYDVTRFQGDVDEDLICPICSGVLEDPVQISHCEHAFCNACITQWLSEQQTCPVDRSIVTFAHLCPVPR

Parental  IMRNMLSKLQIACDNAVFGCSAVVRLDNLMSHLSDCEHNPKRPVTCEQGCGLEMPKDELPNHNCIKHLRS
          I.RNMLSKL.IACDNA.FGC.A.V.LD.LMSHLS.CEHNP.RP.T..QGC.LE..K...PNHNCIK.L.S
Retrocopy ITRNMLSKLKIACDNAEFGCTAFVQLDSLMSHLSECEHNPNRPMTFAQGCALETSKYKVPNHNCIKNLCS

Parental  VVQQQQTRIAELEKTSAEHKHQLAEQKRDIQLLKAYMRAIRSVNPNLQNLEETIEYNEILEWVNSLQPAR
          VVQ.QQ.RI.ELE.TSAEHKHQL.EQKRDIQ.L.AY.RA..S..PNLQN.EET...NE.LEWVNSL..AR
Retrocopy VVQRQQARIIELETTSAEHKHQLIEQKRDIQHLRAYVRALHSLSPNLQNVEETVVHNETLEWVNSLHSAR

Parental  VTRWGGMISTPDAVLQAVIKRSLVESGCPASIVNELIENAHERSWPQGLATLETRQMNRRYYENYVAKRI
          VTRWGGMISTPDAVLQAVIK.SL..S.CPASI.N.L.EN.HER.WP.GLATLETR..NRR.YENYV.KRI
Retrocopy VTRWGGMISTPDAVLQAVIKHSLIQSSCPASITNQLVENSHERNWPPGLATLETRHKNRRHYENYVVKRI

Parental  PGKQAVVVMACENQHMGDDMVQEPGLVMIFAHGVEEI
          PG.QA.V.MACENQHMG.DMV.EPGLV..FAHGVEEI
Retrocopy PGMQAIVMMACENQHMGEDMVREPGLVIMFAHGVEEI

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_3113 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 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000001320	1 retrocopy	retro_meug_901,
Meleagris gallopavo	ENSMGAG00000006916	1 retrocopy	retro_mgal_15,
Myotis lucifugus	ENSMLUG00000006057	1 retrocopy	retro_mluc_300,
Otolemur garnettii	ENSOGAG00000001525	4 retrocopies	retro_ogar_2365, retro_ogar_2487, retro_ogar_3113 , retro_ogar_3228,
Rattus norvegicus	ENSRNOG00000023456	1 retrocopy	retro_rnor_2918,
Sarcophilus harrisii	ENSSHAG00000002679	1 retrocopy	retro_shar_38,