RetrogeneDB ID: retro_ogar_3268

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873760.1:190625..191750(+)
• Located in intron of: ENSOGAG00000026561

Retrocopy information

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

Parental gene information

• Parental gene symbol: KCTD18
• Ensembl ID: ENSOGAG00000012335
• Aliases: None
• Description: potassium channel tetramerization domain containing 18 [Source:HGNC Symbol;Acc:26446]

Sequence

>retro_ogar_3268
TTTCCTCTAAAAACAGATGAGTCAGGGGCTTGTGTTATTGATCATGATGGACATCTATTTAAATACCTTTTGGATTATCC
GCATGGAAAAGTTCAGATTTCCACAGATGAGCAAACCTGCATTGCCCTATTGGAAGAAGCTGATTAATTTGGCATCCCTT
ATCCGTACAGCTTGTCTGACCACTTGGCCAATGAAATGGAGACATATTCTTTAAGGTCAAATATAGAACTTAAAAAGGCT
TTAACGGACTTTGGTGATTCATATGGTTTAGTTTGCAATAAACCAAGAGTTTAGGTTCTCCACTATCTTAAGACATCTGG
CACAAGCTGCGAGAGTAGAATTATTGGTATACATGCCACAAAAACTGATGGAACAGATGCTATTGATTAGCAGCTGGGAG
GAAGAATTCACATTAAAAGCATTTTTAAAAGAGAGGCTGAAAATAATGTTCAATACATTTGGAGCTATTATTCAGTAGCA
CAATTGAAGAAAATGATGGATGTCTTTGATGCTTGAGAAGGAAAAGGTGTCCACTACTGCTGGGTGCCTCATGAACTGAT
AAAATGCTGGAGTCTAGAAGAGCAGCCTTTACTTGGAAGCTTGCATCACATGACTCTGATTTGAAAGAGGCAGCTGGTAT
TCAATGAAGTTGAAGAAGGTGTGAACTGTAAGACCGGTCCTAAGCCAGACAGATTTCTGCCTTCCATAAGTACCCAAATT
AAAGTCAAGAACTCAGTCTGAGTCTTGGTGTTTCCACCCAGTAAGGCTCTGCCAGCAACATATTGTTTTCAAGGTGGCAG
CTACAGAAAGGCAGCTCAGCTCTCTGTGCCCCCAAAGGCCACTTCTCCTGTGGGGACAGGGGCAGCTGGGTGTTCTCAGG
CTCCCTGTGGGGCCGAGAGCACTGAGAACGGAGATATATACCTGTCCCCAGCAAAGGTGCACTTCTAGGACAAGAAGCTA
ATGCCGCATCGCGTGATAAAATTGAAGAGGACTCCAGTGTGTGCATCTGAGGCCTCTCTGACAGCCTCCACTGCAAGCAG
GCCGATCTGTGGCTCCAAGCCGCCTGCACCTGCAGCTTCCAGTATTGGGGATGTGCGGACTGAGGACAGGAAAGAGTAAG
CTAAT

Alignment

ORF - retro_ogar_3268 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.22 %
• Parental protein coverage: 89.55 %
• Number of stop codons detected: 8
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FPLKTDESGACVIDRDGHLFKYLLDYLHGEVQIPTDEQTRIALQEEADYFGIPYPYSLSDHLANEMETYS
          FPLKTDESGACVID.DGHLFKYLLDY.HG.VQI.TDEQT.IAL.EEAD.FGIPYPYSLSDHLANEMETYS
Retrocopy FPLKTDESGACVIDHDGHLFKYLLDYPHGKVQISTDEQTCIALLEEAD*FGIPYPYSLSDHLANEMETYS

Parental  LRSNIELKKALTEFCDSYGLVCNKPTVWVLHYLNTSGASCESRIIGVYATKTDGTDAIDKQLGGRIHSKS
          LRSNIELKKALT.F.DSYGLVCNKP.V.VLHYL.TSG.SCESRIIG..ATKTDGTDAID.QLGGRIH.KS
Retrocopy LRSNIELKKALTDFGDSYGLVCNKPRV*VLHYLKTSGTSCESRIIGIHATKTDGTDAID*QLGGRIHIKS

Parental  IFKREAGNNVQYIWSYYSVAELKKMMDAFDAWEGKGVSYWRVPHELIECWTLEERPLLGSVRHMAPIRKR
          IFKREA.NNVQYIWSYYSVA.LKKMMD.FDA.EGKGV.Y..VPHELI.CW.LEE.PLLGS..HM..I.KR
Retrocopy IFKREAENNVQYIWSYYSVAQLKKMMDVFDA*EGKGVHYCWVPHELIKCWSLEEQPLLGSLHHMTLI*KR

Parental  RLVSFNEEEEEGVNCKTGPKPVRFLGPSTSTQIKVKNSASVRVSPASAALAATNRFQGGSCRKAAQLSAP
          .LV.FN.E.EEGVNCKTGPKP.RFL.PS.STQIKVKNS..V.V.P.S.AL.AT..FQGGS.RKAAQLS.P
Retrocopy QLV-FN-EVEEGVNCKTGPKPDRFL-PSISTQIKVKNSV*VLVFPPSKALPATYCFQGGSYRKAAQLSVP

Parental  PKATS-VGTGAPGCSQAPCGAGSTENGGTYLSPAKVQLSNKKLTPHRVIKLKRTPLCAAAASQTASTASR
          PKATS.VGTGA.GCSQAPCGA.STENG..YLSPAKV....KKL.PHRVIKLKRTP.CA..AS.TASTASR
Retrocopy PKATSPVGTGAAGCSQAPCGAESTENGDIYLSPAKVHF*DKKLMPHRVIKLKRTPVCASEASLTASTASR

Parental  QACGSDPPAPAASSVGEVRTEDGKEEAN
          ..CGS.PPAPAASS.G.VRTED.KE.AN
Retrocopy PICGSKPPAPAASSIGDVRTEDRKE*AN

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_3268 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000031173	2 retrocopies	retro_cjac_1956, retro_cjac_3169,
Otolemur garnettii	ENSOGAG00000012335	1 retrocopy	retro_ogar_3268 ,
Tarsius syrichta	ENSTSYG00000008420	2 retrocopies	retro_tsyr_293, retro_tsyr_896,