RetrogeneDB ID: retro_ogar_3425

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873829.1:226424..227437(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAD51
• Ensembl ID: ENSOGAG00000031397
• Aliases: None
• Description: RAD51 recombinase [Source:HGNC Symbol;Acc:9817]

Sequence

>retro_ogar_3425
ATGGCTATACAGATGCAGCTTGAAGCAAATGCAGATACTTCAGTGGAAGAAGAAAGCCTTGGCCCATAACCTATTTCACA
GTTAGAGCTATGTAGCATAAATGCAAACTATGCAAAGAAATTGGAAGAAGCTGGATTCCATACTGTGGAGACTGTTGCCT
ATGAACCAAAGAAGAAACTAATAAATATTAAGGGAACTAGTGAAGCCAAAGCTGGTCAGATTCTGGCTGAGGCTGCTAAA
TTAGTTCCAATGGGTTTCACCTCTGCAACTGAATTCCACCAAAGGTGGTCAGAGATCATATAGATTACTACTGGCTCCAA
AGAGCTGGACAAATTACTTCAAGGTGGAATAGAGACTGGATCTATCATAGAGATGTTTGGAGAATTCTGAACTGGGAAGA
CTCAGATCTGTCATACACTGGCTGTAACATGCCAGCTTCTGATTGACTGGGGTGGAGGTGAAAGAAAGGCCATGTACATT
GACACTGAGGGTACCTTTAGGCCAGAATGCCTGCTAGCAGTGGCTGAGAGATACAGCCTCTCTGGCAGTGATGTCCTGGA
TAATGTAGCATATGCTCAAGGGTTCAACACAGACCACAAAACCCAGCTCCTTTATCAAGCCTCAGCCATGATGGTAGAAC
CTAGGTATGCACTGCTTATTGTAGACAGTGCCACCACCCTTTACAGAACAGACTACTCAGGCTGAGGTGAACTCCCAGCC
AGGCAGAGGCACTTGGCCAGGTTTCTGCGGATGCTTCTGAGGCTTGCTGATGCGTTTGGTGCAGCAGTGGTAATCACCAA
CCGGGGGTAGCCAAGTGGATGGAGCAGCCATGTTTTCTGCAGATCCCAAAAAAACATATTGGAGGAAATATCATCACCCA
TGCATCAACAACCAGAATGTACCTGAGGAAAGGAAGAGGGGAAACCAGAATCTGCAAAATCTACGACTCTCCTGGTCTTC
CTGAAGTTCCTATGTTTGCCATAAATGCAGATGGAGTGGGAGATGCCGGAGAC

Alignment

ORF - retro_ogar_3425 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.65 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAMQMQLEANADTSVEEESFGPQPISRLEQCGINANDVKKLEEAGFHTVEAVAYAPKKELINIKGISEAK
          MA.QMQLEANADTSVEEES.GP.PIS.LE.C.INAN..KKLEEAGFHTVE.VAY.PKK.LINIKG.SEAK
Retrocopy MAIQMQLEANADTSVEEESLGP*PISQLELCSINANYAKKLEEAGFHTVETVAYEPKKKLINIKGTSEAK

Parental  ADKILAEAAKLVPMGFTTATEFHQRRSEIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTL
          A..ILAEAAKLVPMGFT.ATEFHQR.SEII.ITTGSKELDKLLQGGIETGSI.EMFGEF.TGKTQICHTL
Retrocopy AGQILAEAAKLVPMGFTSATEFHQRWSEII*ITTGSKELDKLLQGGIETGSIIEMFGEF*TGKTQICHTL

Parental  AVTCQLPIDRGGGEGKAMYIDTEGTFRPERLLAVAESQGLLNSDILDRIYILHARNINVKTCLWNQASKI
          AVTCQL.ID.GGGE.KAMYIDTEGTFRPE.LLAVAE...L..SD.LD........N...KT.L..QAS..
Retrocopy AVTCQLLIDWGGGERKAMYIDTEGTFRPECLLAVAERYSLSGSDVLDNVAYAQGFNTDHKTQLLYQASAM

Parental  LIPCRYALLIVDSATALYRTDYSGRGELSARQMHLARFLRMLLRLADEFGVAVVITNQ-VVAQVDGAAMF
          ....RYALLIVDSAT.LYRTDYSG.GEL.ARQ.HLARFLRMLLRLAD.FG.AVVITN...VA.......F
Retrocopy MVEPRYALLIVDSATTLYRTDYSG*GELPARQRHLARFLRMLLRLADAFGAAVVITNR<GVAKWMEQPCF

Parental  AADPKKPIGGNIIAHASTTRLYLRKGRGETRICKIYDSPCLPEAEAMFAINADGVGDAKD
          ...PKK.IGGNII.HASTTR.YLRKGRGETRICKIYDSP.LPE...MFAINADGVGDA.D
Retrocopy LQIPKKHIGGNIITHASTTRMYLRKGRGETRICKIYDSPGLPEV-PMFAINADGVGDAGD

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_3425 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000020821	2 retrocopies	retro_cjac_2811, retro_cjac_430,
Ornithorhynchus anatinus	ENSOANG00000028534	1 retrocopy	retro_oana_26,
Otolemur garnettii	ENSOGAG00000031397	1 retrocopy	retro_ogar_3425 ,