RetrogeneDB ID: retro_ogar_2808

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873665.1:4792841..4794147(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: OGFOD1
• Ensembl ID: ENSOGAG00000014894
• Aliases: None
• Description: 2-oxoglutarate and iron-dependent oxygenase domain containing 1 [Source:HGNC Symbol;Acc:25585]

Sequence

>retro_ogar_2808
AAGAGATAAAGAGATCTTTATATCTCTGCTTTAAGGAAAATTCTGTTTGAAGATTTTTGGGTCTGGTTTTTTGACATTTC
TAAAATTGATCTGGAATCAACTATTGCCATGTCCTATGCTAAATATGAATTCACTGATGCCCTACTCTCCCATGATGATG
AGCTGGAAGGGAGCCAGATTGCCTTCATTTTGTACCTGGTTCCTTCCTAGGATAAGACTTTTGGGGGCACCCTGGACATC
TACAACATTGATGAACACTTTCAGCTGAAGCACATCATCAAGTCTCTTATCCCTTCATGGAACAAACTGGTCTTCTTTGA
AGTGTCTCCAGTATCCTTTCACCAGGAGTCTGAAGTCCTGTCTGAAGAAAAGTCATGTTTGTCTCCAAGTGGCTGGTTTC
ATGGCTCTTCAGGGACTAGGCCTCCCAACTCCTTTGAACTCCTCATACCTTGGCGCCCTCACATCCCACAAGATTATGAA
ATTTTATATGATTGGATCAACCCAACATATCTGGACATGTATTATCAAGGTCAAATTCAAGAAGTTGACTTTGGAGAAAG
TTCTGAAATTCTCCTGAAGGAGTTTCTTAAGCCTAAGAAATTTGCAAAGGTCTGTGAGGCTCTGGAGAATGATGTGGAAT
GGAGCAGCTGAGGTCCCCCTAATAAAAGGTTTTATGAGAAAGCGGAAGAGAGTAAGCTTCTCAATATTCTGAAAGACTGC
ATGGAGTTATTTCGCTCTGAGGCACTGTTCTTGCTGCTCTCCAACTTCACAGGCCTGAAGCTTCACTTCTTGGCCCCTTC
AGAAGAAGATGAAACTGATGACCAAAAAGAGGAAGAAGCAGCCTCTACTGCTGACTGTACTGAAGAAGGGACTAGCCACA
ATTCCTCTGAGCCAGAGAATAAGCAGGCAGACATCAACAACAAGAGCCAACAGGCCCAGAGCCAGAGGAAAATGAAACAA
AGAAAGAATTAAGTGTTCCCACATGCCAAGGAGAATTGAGGCATTGGAAGACAGGTCACTATACTTTAATCCATGACAAT
AGCAAGGCTAAATTTGCCCTAGACTTAATTCTGTACCATGGATGTGAAGGCTGGGAGCCAGAGTATGGTGGCTTTACTTC
CTACATTGCTAAAGGTGAAGATGAAGAGCTGCTAACAGTGACTCCAAAAAACAATTCTTTGGCATTGGTCTACGAGATAG
AGAGACTCTGAAATTTGTTAAGCTTATTAATCACCAAAGTCTAGAACAGAAGAAAACCTTCCCAAACAGAAAATGTTTCT
GGGACTTTTCATTTATCTATTATGAA

Alignment

ORF - retro_ogar_2808 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.5 %
• Parental protein coverage: 80.15 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  KKRREPHISALRKILFEDFRAWLSDISKIDLESTIDMSCAKYEFTDALLCHDDELEGRRIAFILYLVPSW
          K..R...ISALRKILFEDF..W..DISKIDLESTI.MS.AKYEFTDALL.HDDELEG..IAFILYLVPS.
Retrocopy KR*RDLYISALRKILFEDFWVWFFDISKIDLESTIAMSYAKYEFTDALLSHDDELEGSQIAFILYLVPS*

Parental  DKSFGGTLDLFSTDEHFQPKHIVKSLIPSWNKLVFFEVSPVSFHQVSEVLSEEKSRLSISGWFHGPSLTR
          DK.FGGTLD....DEHFQ.KHI.KSLIPSWNKLVFFEVSPVSFHQ.SEVLSEEKS.LS.SGWFHG.S.TR
Retrocopy DKTFGGTLDIYNIDEHFQLKHIIKSLIPSWNKLVFFEVSPVSFHQESEVLSEEKSCLSPSGWFHGSSGTR

Parental  PPNYFEPLVPRSPHIPQDHEILYDWINPTYLDMNYQGQIQE-EFEESSEILLKEFLKPEKFAKVCEALEK
          PPN.FE.L.P..PHIPQD.EILYDWINPTYLDM.YQGQIQE..F.ESSEILLKEFLKP.KFAKVCEALE.
Retrocopy PPNSFELLIPWRPHIPQDYEILYDWINPTYLDMYYQGQIQEVDFGESSEILLKEFLKPKKFAKVCEALEN

Parental  GDVEWNNRGPPNKRFYEKAEESKLPDILKDCMELFRSEALFLLLSNFTGLKLHFLAPSEDETDDKKEEEA
          .DVEW...GPPNKRFYEKAEESKL..ILKDCMELFRSEALFLLLSNFTGLKLHFLAPSE....D...EE.
Retrocopy -DVEWSS*GPPNKRFYEKAEESKLLNILKDCMELFRSEALFLLLSNFTGLKLHFLAPSEEDETDDQKEEE

Parental  ASAADCTEEGTSHSSSAPEHKQAAVSSESQQ-TGPEPEENETKKELSVPTCQGELRHWKTGHYTLIHDNS
          A.......E......S.......A......Q.TGPEPEENETKKELSVPTCQGELRHWKTGHYTLIHDNS
Retrocopy AASTADCTEEGTSHNSSEPENKQADINNKSQ<TGPEPEENETKKELSVPTCQGELRHWKTGHYTLIHDNS

Parental  KAEFALDLILYCGCEGWEPEYGGFTSYIAKGEDEELLTVNPENNSLALVY-RDRETLKFVKHINHRSLEQ
          KA.FALDLILY.GCEGWEPEYGGFTSYIAKGEDEELLTV.P.NNSLALVY.RDRETLKFVK.INH.SLEQ
Retrocopy KAKFALDLILYHGCEGWEPEYGGFTSYIAKGEDEELLTVTPKNNSLALVY<RDRETLKFVKLINHQSLEQ

Parental  KKTFPNRTGFWDFSFVYYE
          KKTFPNR..FWDFSF.YYE
Retrocopy KKTFPNRKCFWDFSFIYYE

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_2808 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000013378	1 retrocopy	retro_mdom_777,
Otolemur garnettii	ENSOGAG00000014894	1 retrocopy	retro_ogar_2808 ,
Ochotona princeps	ENSOPRG00000006697	1 retrocopy	retro_opri_1103,