RetrogeneDB ID: retro_ogar_2287

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873609.1:1247120..1248650(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PARP1
• Ensembl ID: ENSOGAG00000016206
• Aliases: None
• Description: poly (ADP-ribose) polymerase 1 [Source:HGNC Symbol;Acc:270]

Sequence

>retro_ogar_2287
GCAGATAAGCCTTTATCCAACATGAAGATCCTGACTCTTGGGAAGCTCTCCCAGAACAAGGATGAAGTGAAGGCCATGAT
TGAAAAACCTAGGGGGAGATTGATAGGGACAACCAACAAGTCCTCCATGTGTATCAGTACAAAAAAGGAGATAGAAAAGA
TGAATGAGAAAATGGAGGAAGTAAAAGAAGCCAATATTCATGTTGTGTCTGAGGATCTCCTCCAAGATGTCTCCCCCTCC
ACCAAGAGCCTTCCAAAATTGTTCCCAGCATACATTTGTCTCCCTGGGGAGCAGAGGTGAAGGCAGAGCCTGTTGAAGTA
GCAGTCCCAAAAGGGAAATCAGGGTCTGCCTGCTCTAAAAATAGTGAGGGCCCCATTAAGGAGGAAGGTATTAAAAAATC
TGAAAAGAGAATGAAATTAACTCTTAAAGGAGGGGCAGCTGTCAATCCTGATTCTGGTCTGGAACACTCTGCGCACATCC
TGGGAAAAGGTGAGAAGGTCTTCAGCACCACCTTTGACCTGGTAGATATTGTTAAAGAAACTAACTCCTATCACAAGCTG
TAGTTTCTGGAGGATGACAAGGAAAGCAGGTATGGGATATTCTGGTCCTCAGGCTTAGTGGGCATAGTAATTGGTAGCAA
CAAACTGGAGCAGATGCCATCCAAAGAGGATGCCATTGAGCACTTTATGAAATTACATGAAGAAAGAACTGGGAATACCT
GGCACTCCAAAAGTTTCACCAAGTATCCCAAAAAAGTTCTACTCTCTAGAGATTGACTATCGCCAGGATGAAGAGGTGGC
AAAGAAGCTGACAGTAAACCCAGGGACCAAGTCCAAGCTCCCCAAACCAGGTCAGGAGCTTATTAAGATGACCTTTGATG
TGGAAAGTGTGAAGAAAGCTATGGTGGAATATGAGATCTACCTTCAGAAGATGCCCTTGGGGAAGCTGAGCAAGAGGCAG
ATCCAGGCTGCATACTCCATCCTCAGTAAGGTCCAGCAAGCAGTGTCCCAGGGCAGCAGTGATTCCCAGATTCTGGATCT
GTCAAATATCTTCTACAATCTGATCCCCCACAACTTTGGGATGAAGAAAAATCCACTCCTGAACAATGCAGGAAGCATGC
AGGCCATGGTAGAAATGATGGACAACCTGCTAGACACTGAGGTGGCCTACAATCTGCTCAGGGGTGGGTCTGATGATAGC
AGCAAGGACCCCATCAATGTCAACTATAAGAAGCTCAAAACCTACACTAAAGTGGTTGACAAAGATTCTGAAGAAGCCAA
GATCATCAGGAAATACGTTAAGAACACTTATGCCATCACACACAGTGCATATGACTTAGAAGTTGTTGATATCTTTGCGA
TGGAGTGTGAAGGAGAGAGCCAATGCTACAAACCTGTTAAGCAGCTTCACAACTGAAGGTTGCCATGGCATGGCTACTGG
ACTATCAACTTTGCTGGAATCTTGTCCCAGGGTCTACGGATAGCCCCTCCTGAAGCACCTGTGATGGGCTACATGTTTGG
TAAAGGGATC

Alignment

ORF - retro_ogar_2287 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.4 %
• Parental protein coverage: 50.15 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ADKPLSNMKILTLGKLSRNKDEVKAMIEKLGGRLTGTTNKASLCISTKKEIEKMSKKMEEVKEANIRVVS
          ADKPLSNMKILTLGKLS.NKDEVKAMIEK..GRL.GTTNK.S.CISTKKEIEKM..KMEEVKEANI.VVS
Retrocopy ADKPLSNMKILTLGKLSQNKDEVKAMIEKPRGRLIGTTNKSSMCISTKKEIEKMNEKMEEVKEANIHVVS

Parental  EDFLQDISASTRSLPELFSTYI-LSPWGAEVKTEPVEVAVPKGKSGSTLSKKSKGPIKEEGINKSEKKMK
          ED.LQD.S.ST.SLP.LF..YI.LSPWGAEVK.EPVEVAVPKGKSGS..SK.S.GPIKEEGI.KSEK.MK
Retrocopy EDLLQDVSPSTKSLPKLFPAYI<LSPWGAEVKAEPVEVAVPKGKSGSACSKNSEGPIKEEGIKKSEKRMK

Parental  LTLKGGAAVDPDSGLEHSAHVLEKGGKVFSATLGLVDIVKGTNSYYKLQLLEDDKESRYWIFRSWGRVGT
          LTLKGGAAV.PDSGLEHSAH.L.KG.KVFS.T..LVDIVK.TNSY.KL..LEDDKESRY.IF.S.G.VG.
Retrocopy LTLKGGAAVNPDSGLEHSAHILGKGEKVFSTTFDLVDIVKETNSYHKL*FLEDDKESRYGIFWSSGLVGI

Parental  VIGSNKLEQMPSKEDAIEHFMKLYEEKTGNAWHSKNFTKYPKK-FYPLEIDYGQDEEAVKKLTVNPGTKS
          VIGSNKLEQMPSKEDAIEHFMKL.EE.TGN.WHSK.FTKYPKK.FY.LEIDY.QDEE..KKLTVNPGTKS
Retrocopy VIGSNKLEQMPSKEDAIEHFMKLHEERTGNTWHSKSFTKYPKK>FYSLEIDYRQDEEVAKKLTVNPGTKS

Parental  KLSKPVQELIKMIFDVESMKKAMVEYEIDLQKMPLGKLSKRQIQAAYSILSEVQQAVSQGSSDSQILDLS
          KL.KP.QELIKM.FDVES.KKAMVEYEI.LQKMPLGKLSKRQIQAAYSILS.VQQAVSQGSSDSQILDLS
Retrocopy KLPKPGQELIKMTFDVESVKKAMVEYEIYLQKMPLGKLSKRQIQAAYSILSKVQQAVSQGSSDSQILDLS

Parental  NRFYTLIPHDFGMKKPPLLNNEGSVQAKVEMLDNLLDIEVAYSLLRGGSDDSSKDPIDVNYEKLKTNIKV
          N.FY.LIPH.FGMKK.PLLNN.GS.QA.VEM.DNLLD.EVAY.LLRGGSDDSSKDPI.VNY.KLKT..KV
Retrocopy NIFYNLIPHNFGMKKNPLLNNAGSMQAMVEMMDNLLDTEVAYNLLRGGSDDSSKDPINVNYKKLKTYTKV

Parental  VDKDSEEAEIIRKYVKNTHATTHNAYDLQVVDIFKIEREGESQRYKPFKQLHNRRLLWHGSRTTNFAGIL
          VDKDSEEA.IIRKYVKNT.A.TH.AYDL.VVDIF..E.EGESQ.YKP.KQLHN.RL.WHG..T.NFAGIL
Retrocopy VDKDSEEAKIIRKYVKNTYAITHSAYDLEVVDIFAMECEGESQCYKPVKQLHN*RLPWHGYWTINFAGIL

Parental  SQGLRIAPPEAPVTGYMFGKGI
          SQGLRIAPPEAPV.GYMFGKGI
Retrocopy SQGLRIAPPEAPVMGYMFGKGI

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_2287 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000016206	1 retrocopy	retro_ogar_2287 ,
Pongo abelii	ENSPPYG00000000164	1 retrocopy	retro_pabe_1028,