RetrogeneDB ID: retro_ogar_724

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873526.1:42525348..42526324(+)
• Located in intron of: ENSOGAG00000000768

Retrocopy information

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

Parental gene information

• Parental gene symbol: SCRN3
• Ensembl ID: ENSOGAG00000016569
• Aliases: None
• Description: secernin 3 [Source:HGNC Symbol;Acc:30382]

Sequence

>retro_ogar_724
TACACAGAAATCAATCAAGTTCCTAAAACATATGCTGTTGTCCTTAATGGCCCAGTATGGGTATGGGGGGCAGAAATTGG
AGCTAGTGAGCATGGAGTTTGCACTGGGAATGAAGCTGTATGGGAAAGAGAAAAAGTTTGTAATGAAGAGTCACTGCTGG
GAATGGACCTTGTCAGACTTAGCCTTGAAAGACCAGATCCAGCTGAAAATGCCCTCAATGTCATTGTTGATTTATTGGAA
AAATATGGCCAGGGTGGAAATTGTACAGAGGCGGGTTGATTTTCCACTATAACAATAGTTTCCTGATAGCTGATAGAAAT
GAAGCCTGGATTCTAGAGACTGATGAGAAGGACTGGGCAGCAGAGAAAGTGCAAGAAGGAGTTCATAATATTTCTAATCA
ACTTTCTATAACAACCAAGATTGATTGGGAACACCCAGACATGAGAAAGTAAGCTAAGCTGAAAGGTTGGTGGGATGGTA
AAAAAAAGTGTGATTTTGCTGCAACATACTGCTGTAAGAACCTTGACACAGCCAAGATGATGATTTCATCGGCAGCTACC
ATGAGGACTATAAGCTTCTAAATTAACACAAAGGAAACATAACTCTTGAAACAATGATGAAAATTCTCTGTGATAAACCA
AATGGTGTTAATATAGAGGGTAAATTGCTGATCATGGCAAGAATAGTTTCTATTTTACCTCAAAACTCCACCTTTCCTAG
CATTCATTTTTTTTACAGGAACTCAGAATCCTGACAGGTCTGTTTTTATGCCTTTCATCCTTGTGCCACGTATTTCACAA
CTGTGGGATACACACTCACCAACATTTGAACTTGAAGCTTCAGTTACAGAGAAGCCACATTTTAAGCCTGACAAAAGATA
CCCACTCTTACCAAAAACATCAACAGGCATTGGAAGTAATAGATAAAATGAGGGAAAGTCAAAACGATATTAGACAATGT
GAAGAAACTGGAGAAA

Alignment

ORF - retro_ogar_724 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.1 %
• Parental protein coverage: 75.7 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  YIEIEQVPETYAVVLSRPAWLWGAEMGANEHGVCIGNEAVWGREKVCDEDALLGMDLVRLGLERADTAEK
          Y.EI.QVP.TYAVVL..P.W.WGAE.GA.EHGVC.GNEAVW.REKVC.E..LLGMDLVRL.LER.D.AE.
Retrocopy YTEINQVPKTYAVVLNGPVWVWGAEIGASEHGVCTGNEAVWEREKVCNEESLLGMDLVRLSLERPDPAEN

Parental  ALNVIVDLLEKYGQGGNCTE-GGMIFTYHNSFLIADRNEAWILETAGKYWAAEKKTEGVRNISNQLSITT
          ALNVIVDLLEKYGQGGNCTE.GG.IF.Y.NSFLIADRNEAWILET..K.WAAEK..EGV.NISNQLSITT
Retrocopy ALNVIVDLLEKYGQGGNCTE<GGLIFHYNNSFLIADRNEAWILETDEKDWAAEKVQEGVHNISNQLSITT

Parental  KIDREHPDMRNYAKQKGWWDGKKEFDFAATY--SYLDTAKMMTSS-GRYCEGYKLLNKHTGNITFETMME
          KID.EHPDMR..AK.KGWWDG....DFAATY....LDTAKMM.SS.G.Y.E.YKLLN.H.GNIT.ETMM.
Retrocopy KIDWEHPDMRK*AKLKGWWDGXXXCDFAATYCCKNLDTAKMMISS<GSYHEDYKLLN*HKGNITLETMMK

Parental  ILCDKPSGINMEGEFLTTASMVSILPQDSTLPCI-HFFTGTPDPERSVFKPFIFVPHISQLWDTCSPTFE
          ILCDKP.G.N.EG..L..A..VSILPQ.ST.P.I....TGT..P.RSVF.PFI.VP.ISQLWDT.SPTFE
Retrocopy ILCDKPNGVNIEGKLLIMARIVSILPQNSTFPSI>XXXTGTQNPDRSVFMPFILVPRISQLWDTHSPTFE

Parental  LEDPVRKKPHFKPDRRHPL-YQKHQQALEVIDN-NKEKAK-TILDNMKKLEK
          LE..V..KPHFKPD.R.PL.YQKHQQALEVID..N..K.K.TILDN.KKLEK
Retrocopy LEASVTEKPHFKPDKRYPL>YQKHQQALEVIDK<NEGKSK<TILDNVKKLEK

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_724 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	ENSOGAG00000016569	1 retrocopy	retro_ogar_724 ,