RetrogeneDB ID: retro_ogar_1652

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873558.1:14188802..14190039(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZDHHC6
• Ensembl ID: ENSOGAG00000030535
• Aliases: None
• Description: zinc finger, DHHC-type containing 6 [Source:HGNC Symbol;Acc:19160]

Sequence

>retro_ogar_1652
GGTACATTCTGCTCAGTGATCAAGATTGAGAATCTCCAAGAATCAAAGAGACTATGTCACTGGGTCCCCCCACAGCCCTC
AGTGTTACAGCGACATGTTCTCCTATGGCCATGAGCGACTCTGTGTTGAGGTGTTGGCCCTAATGTACAATTGGGGGAAG
AGTGGATTTCATCATGTTGATGATTGGACTGTTACCATCTTTGTAATTACTTGAATGAAGTGTCTGTGGGCCCTGGGTTT
GTCCCTCTGGGATGGAAACCAGAAAATTCTCAGGATACCATGTATTTCCAGTGTTGTAAGTCTGCCAAGCACATAAGACA
TCACGTTCTCACCACTGTGGAAAATATAACAGATGTGTGATGAAGATGGACTGCCACTGTCCTTGGATCAACAACTGTGT
GGTTAACCGAAAACATGCTTCCTTCACAATGCTTTTCCTTTTAGCACCACTCGGCTGTATCCACACTGCTTTCATTTCTG
TTGTGATGACAGACATGCAGCCTTATCATCGGGTCTCCTTTGGGTGAAACACAGTGAAGATTGCATGAGTGCAGCCTGGA
GAGACCCCGTTCTGATCCTTCTTCTAGATTAGCTGCATCTGCTGCCATCTCACCTGCCTTCAGATTAGCTTTGGGAACAA
CCATAGCTGTTGGGGGTGTTCTTTTTTATCCAGGTGAAAATAATTCTTGGAATTAATTCAAGATTAATTTGTGATTCTAT
TGAATCACAAATCGAAGAGAAGGCTGATGAGGGAGTTCAATATTATCAACTAGATAAAGTCTTTGTTTTTTCCCTATGAT
GTGGGAAGTCGGAGGAAGAACTTTAATAGGTATTTATGTAGTCAGGGGTTCCTGAAGGAGAAGGACTGGGATGGCCCATA
AAGAAGGCTGTCACCAGTACAGCTTAACAGTAGAACAGTTGAAACCAAAGGCAGATAAGAGAGTCAGAAGTGTTCGCTAT
AAAGTAATAGAAGATTATAGTGGTGTTGGAGGTCCTTTGAATTAAGTAATCAAAACCTTCTTCACAAGACCCTGCACTGA
AGAGCCTCGAATACAGCTACAAAAAAGGAGTTCATTTTAGCCATAAGAGGCTTACGGACTGGTTGCATGGAGACAAATTC
CTGATGATCCCTTATAGAAGGTGTTTCGAGAATAAGAGGATGGTTCCCTAGAAACTGTGTGGAAAGTGCCCCTGTGAGGC
TGAAGCAGATCAAGGCCCAGAGGGTGAGAGGAAAAAT

Alignment

ORF - retro_ogar_1652 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.42 %
• Parental protein coverage: 99.52 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 12

Retrocopy - Parental Gene Alignment:

Parental  GTFCSVIKFENLQELKRLCHW-GPIIALGVIAICSTMAMIDSVLWYWPLHTTGGSVNFIMLI-NWTVMI-
          GTFCSVIK.ENLQE.KRLCHW.GP..AL.V.A.CS.MAM.DSVL..WP..T.GG.V.FIML...WTV.I.
Retrocopy GTFCSVIKIENLQESKRLCHW<GPPTALSVTATCSPMAMSDSVLRCWP*CTIGGRVDFIMLM<DWTVTI<

Parental  LYNYFNAMFVGPGFVPLGWKPENSQDTVYLQYCK-VCQAYKAPRSHHCRKCNRCVMKMDHHCPWINNCCG
          L.NY.N...VGPGFVPLGWKPENSQDT.Y.Q.CK.VCQA.K..RSHHC.K.NRCVMKMD.HCPWINNC..
Retrocopy LCNYLNEVSVGPGFVPLGWKPENSQDTMYFQCCK<VCQAHKTSRSHHCGKYNRCVMKMDCHCPWINNCVV

Parental  FQNHASFTLFLLLAPLGCIHAAFIFVMTMYTQLYNRLSFGWSTVKID-MSAARRDPVPIIPFG-LAAFAA
          ...HASFT...LLAPLGCIH.AFI.V.....Q.Y.R.SFG..TVKI..MSAA.RDPV.I.....LAA.AA
Retrocopy NRKHASFTMLFLLAPLGCIHTAFISVVMTDMQPYHRVSFG*NTVKIA<MSAAWRDPVLILLLD<LAASAA

Parental  TLFALGLALGTTIAV-GMLFFIQMKIILG-NKTSIESWIEEKAKDR----IQYHQLDKAFV-FPYDMGSR
          ...A..LALGTTIAV.G..FFIQ.KIILG.N...I...IE...........QY.QLDK.FV.FPYD.GSR
Retrocopy ISPAFRLALGTTIAV>GVFFFIQVKIILGINSRLICDSIESQIEEKADEGVQYYQLDKVFV>FPYDVGSR

Parental  WKNFKQ-VFTWSGVPEGDGLEWPI-KEGCHPYSLTIEQLKQKADKRDRSVRYKVIEDYNGACCPLNKGIK
          .KNF...VF..SGVPEG.GL.WPI.KEGCH.YSLT.EQLK.KADKR.RSVRYKVIEDY.G...PLN..IK
Retrocopy RKNFNR<VFM*SGVPEGEGLGWPI<KEGCHQYSLTVEQLKPKADKRVRSVRYKVIEDYSGVGGPLN*VIK

Parental  TFFTSPCTEEPRIQLQ-KGEFILATRGLRY-WLYGDKILDDYFREGVSRIRGWFPRNCVEKCPCDAEADQ
          TFFT.PCTEEPRIQLQ.K.EFILA.RGLR..WL.GDK.L....R......R...P.....KCPC.AEADQ
Retrocopy TFFTRPCTEEPRIQLQ<KKEFILAIRGLRT<WLHGDKFLMIPYRRCFENKR-MVP*KLCGKCPCEAEADQ

Parental  APADEKKN
          .P..E.KN
Retrocopy GPEGERKN

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_1652 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000015401	1 retrocopy	retro_amel_1120,
Canis familiaris	ENSCAFG00000010960	1 retrocopy	retro_cfam_2178,
Choloepus hoffmanni	ENSCHOG00000012828	1 retrocopy	retro_chof_1480,
Felis catus	ENSFCAG00000030784	1 retrocopy	retro_fcat_1193,
Loxodonta africana	ENSLAFG00000008129	1 retrocopy	retro_lafr_304,
Mustela putorius furo	ENSMPUG00000002043	1 retrocopy	retro_mputfur_668,
Mus musculus	ENSMUSG00000024982	1 retrocopy	retro_mmus_1740,
Otolemur garnettii	ENSOGAG00000030535	1 retrocopy	retro_ogar_1652 ,
Ictidomys tridecemlineatus	ENSSTOG00000013840	1 retrocopy	retro_itri_308,
Tarsius syrichta	ENSTSYG00000009673	2 retrocopies	retro_tsyr_1653, retro_tsyr_1771,