RetrogeneDB ID: retro_ogar_361

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873520.1:59616578..59617826(+)
• Located in intron of: ENSOGAG00000033579

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCDC138
• Ensembl ID: ENSOGAG00000014396
• Aliases: None
• Description: coiled-coil domain containing 138 [Source:HGNC Symbol;Acc:26531]

Sequence

>retro_ogar_361
CAGCAACATAATGCCAAAGTTGAACACTTTAACTGAAGTTCTTAAGGAAAAGAATAAAGAAAGCAAAAGACTGAGGTCCT
CTTTTGATGCACTGAGAGAACTGAATGATACATTTAAAAAAGCAATTAAATAAAGTGAAGAAAACAAGAGGATGAAAATT
CAGGCTAAAAGAGTTCAAGCTCGTTTAGATACTTATAGAGGAAGTATGAATTCATGCCAACACAAGAGATTGAAAGGAAA
TTCTTACACTATTCCTGGAGTGAAAAGTTTAAAACAAGAAAAAGTACCAGTTTCAAAAACTTCCAAGGTACCACTTAATG
GACAAGTTTATGAACTTTTAACTTTCTTCTTGGATTGGATTTTGGATCATCTTAGTAAAGTGAAACATGAAGAATCTGGA
ATGGATGGTGAAAAACCTCAACTCAAATTTGCTTCTCAGAGAAATGATATTCAGCAAAAGTTTGTAAAGCTTTTGCCTAT
GATGACAGAGCAGCTACAGTGGATGCCATTTGTGAATGCCAAACTTCATGAGACTTTTATAAAATTTATATATTGATCAC
TAAGACAGCTAGATGCTGGAACACAGCATTCAACTAGGACTTCAACATTGAGGAGACTGGGTGAAGAAATATTTAAAGGA
GTAGTAACTAAAGAAAATTAGGATAATTCTTTACAGCATTCGGAGGAGTAATAAACCAAAGACAGCTGCTTTCTTTAAAA
GCTCTAATTTGCCATTGAGATTTTTATCAACCTTAATTGATCTCAAAACAATCACTCAAACTGACTACCTGGCTCAGGCA
TTTGATTCTCTTTGTGTGGACTTGAAGACAGATGAAGGAAAAATATTGTTTTTGAAATACCGCAGTGTTCCAGTAATACT
GAATAATCTAAGAATATCCAGTAAAAGACTCATATCCAATGTCATTGATAGTTTGCTTCAGATGACAGCGGAATCTAAAT
TCTTGCAGCCGGTCCTGGAAGCCTGTAGCAATACTTTATTTTTTCGTACTTGCTTTGCTGCTTTGAACCCCTAAGCTTGA
TCTTCAAATACTAGAAAAGCTCAGTATTATTCTACAAGAACTTTCAAAAATCAAGAGTAATAAGAAGCTCTTTGAAATTT
TTACAGTTCATCTGATGCTTCAAGAAATACAAAGGACAACCCATCCAGAGCATGCCTTTTTCTGTATTAATCTAAATTCA
ACTCTGTTCAACTTGGGTTTAACAAAATGCAACTCCGTAGTCTCCAGT

Alignment

ORF - retro_ogar_361 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.4 %
• Parental protein coverage: 62.95 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  EQHNAEVEH-LTEVLKEKNKESKRLRSSFDALKELNDTLKKQLNEVSEENKRMEIQAKRVQARLDNLQ-R
          .QHNA.VEH.LTEVLKEKNKESKRLRSSFDAL.ELNDT.KK.....SEENKRM.IQAKRVQARLD....R
Retrocopy QQHNAKVEH>LTEVLKEKNKESKRLRSSFDALRELNDTFKKAI-K*SEENKRMKIQAKRVQARLDTYR<R

Parental  KYEFMTVQ-RLKGNSYTAPEVKNSKQEKVPVSKTSKVPLNGQVYELLTVFMDWMSDHHLSKVKHEESGMD
          KYEFM..Q.RLKGNSYT.P.VK..KQEKVPVSKTSKVPLNGQVYELLT.F.DW..DH.LSKVKHEESGMD
Retrocopy KYEFMPTQ>RLKGNSYTIPGVKSLKQEKVPVSKTSKVPLNGQVYELLTFFLDWILDH-LSKVKHEESGMD

Parental  GEKPQPKLASQRSDIQEKFVKLLPMMTEQLQWMPFVNVKLHEPFVKFIYWSLRQLDAGTQHSTMTSTLRR
          GEKPQ.K.ASQR.DIQ.KFVKLLPMMTEQLQWMPFVN.KLHE.F.KFIY.SLRQLDAGTQHST.TSTLRR
Retrocopy GEKPQLKFASQRNDIQQKFVKLLPMMTEQLQWMPFVNAKLHETFIKFIY*SLRQLDAGTQHSTRTSTLRR

Parental  LGEDIFKGVITKGNQDNSLEHSGE-NKPKTTAFFKSSNLPLRFLSTLIVLKTVTQADYLAQAFDSLCVDL
          LGE.IFKGV.TK.N.DNSL.HS.E.NKPKT.AFFKSSNLPLRFLSTLI.LKT.TQ.DYLAQAFDSLCVDL
Retrocopy LGEEIFKGVVTKEN*DNSLQHSEE>NKPKTAAFFKSSNLPLRFLSTLIDLKTITQTDYLAQAFDSLCVDL

Parental  KTDEGKLLFLKYHTVPVILNHLRISSKGLLSNVIDSLLQMTVESKFLQPFLEACSNTL-FFRTCSVLLRT
          KTDEGK.LFLKY..VPVILN.LRISSK.L.SNVIDSLLQMT.ESKFLQP.LEACSNTL.FF.....LL.T
Retrocopy KTDEGKILFLKYRSVPVILNNLRISSKRLISNVIDSLLQMTAESKFLQPVLEACSNTL>FF-VLALLL*T

Parental  PKLDLQILEKLSIILQKLSKIKSNKKLFELFTIHLMLQEIQRTTHPEHAFLCINLNSTLFNLGLTKCNSV
          PKLDLQILEKLSIILQ.LSKIKSNKKLFE.FT.HLMLQEIQRTTHPEHAF.CINLNSTLFNLGLTKCNSV
Retrocopy PKLDLQILEKLSIILQELSKIKSNKKLFEIFTVHLMLQEIQRTTHPEHAFFCINLNSTLFNLGLTKCNSV

Parental  VSS
          VSS
Retrocopy VSS

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_361 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000014396	1 retrocopy	retro_ogar_361 ,