RetrogeneDB ID: retro_ogar_1316

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873542.1:13322457..13323011(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CECR5
• Ensembl ID: ENSOGAG00000009307
• Aliases: None
• Description: cat eye syndrome chromosome region, candidate 5 [Source:HGNC Symbol;Acc:1843]

Sequence

>retro_ogar_1316
CTGGTGATCCTGGATGAGCTGCGGATGGCCTTCCCCGGGCTTGTCATAGTGGATCTGGAGTGGCAGCCGAAGACCACGCC
CTTTCCAAGGAATGACTTCCCAGCCATTGAAGGGGTGCTCCTACTTGGGGAGCCAGTCCATTGGGAGACAAGCCTGCAGC
TGATCATGGATGGCCTCCTCAGCAATGGGAACACTGGGGCTGGCCTGGCAACGGCTCCCTATCCACATCTCCCTGTCCTG
GCCAGCAACATGGATCTCCTTTGGATGGCTGAAGCTAAGATGCCCAGTTTGGCCACGGCACCTTTCTGCTGTGCCTGGAA
ACCATTTACCAGAAAGTGACGGGCAAGGAACTAAAATACGCGGGCCTGATTGGCAAGCCCAGCATCCTCACCTACCCGTA
CGCAGCGGACATGATCAGGCAGCAGGCGGAACAGAGGGGCTGGACCGCCCCCATCCTAAAGCTCTAGGCTGTGGCTGATA
AGCTCACCAGATCTGACGTCTATGGTGCCAACCTGTTCCACCAATACCTGCAGGCGGCCAGGCACGCTGGGGCC

Alignment

ORF - retro_ogar_1316 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.26 %
• Parental protein coverage: 60.33 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  VVTMDELRMAFPVLDIVDLERRLKTTPLPRNDFPAIEGVLLLGEPVRWETNLQLILDVLLSNGTPGTGLA
          .V..DELRMAFP.L.IVDLE...KTTP.PRNDFPAIEGVLLLGEPV.WET.LQLI.D.LLSNG..G.GLA
Retrocopy LVILDELRMAFPGLVIVDLEWQPKTTPFPRNDFPAIEGVLLLGEPVHWETSLQLIMDGLLSNGNTGAGLA

Parental  MAPYPHLPVLASNMDLLWMAEAKMP-RFGHGTFLLCLETIYRKVTGKELRYVGLMGKPSILTYQYAEDMI
          .APYPHLPVLASNMDLLWMAEAKMP..FGHGTFLLCLETIY.KVTGKEL.Y.GL.GKPSILTY.YA.DMI
Retrocopy TAPYPHLPVLASNMDLLWMAEAKMP<QFGHGTFLLCLETIYQKVTGKELKYAGLIGKPSILTYPYAADMI

Parental  RQQAEQRGWTTPIQKLYAVGDNLT-SDVYGANLFHQYLQMARHTGA
          RQQAEQRGWT.PI.KL.AV.D.LT.SDVYGANLFHQYLQ.ARH.GA
Retrocopy RQQAEQRGWTAPILKL*AVADKLTRSDVYGANLFHQYLQAARHAGA

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_1316 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.

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000018439	1 retrocopy	retro_mdom_1197,
Otolemur garnettii	ENSOGAG00000009307	1 retrocopy	retro_ogar_1316 ,