RetrogeneDB ID: retro_ogar_2455

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873624.1:1087916..1089172(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RHOT1
• Ensembl ID: ENSOGAG00000001194
• Aliases: None
• Description: ras homolog family member T1 [Source:HGNC Symbol;Acc:21168]

Sequence

>retro_ogar_2455
GATAATGATGGTACCCTCAATGATGCTGAGCTCAACTTATTTCAGAAAATTTGTTTCAACACTCCATTAGCTCCTCAAGC
TTTGGAAGATGTCAAGAATGTAGTGAGAAAACATATAAGTGATGGTGTGGCTGACAGTGGATTGACACTGAAAGGTTTTC
TCTTTTTACACACACTTTTTATCCAGAGGAGACACAAAACTACTTGGACTGTGCCTCGACAATTTGGTTATGATGATGAT
CTGGATTTGATGTCTGAATATTTATTCAACCTGCTAAAAATACCTCCTGATTGCACTACTGAATTAAATCTCATGCATAT
TTGTTTCTCCAGAGCACCTTTGACAAGCATGATTTGGATAGAGATCGTGCTTTGTCACCTGATGAGCTTAAAGATTTATT
CAAAGTTTTCCCTTACATACCTTGGGGGGGCAGATGTGAATAACACAGTTTGTACCAACAAAAGAGGCTGGATAACCTAC
CAGGGATTCCTTTCCCAGTGGACCCTCATGGCTTATTTAGATGTACTGCAGTGCCTGGAGTATTTGGACTATCTAGGCTA
TTGGATATTGACTGAACAAGAATCTCAAGTTTCAGCCATTACAGTAACAAGAGATAAAAAGATAGACCTGCAGAAAAAAC
AGACTCAAAGAAATGTGTTCAGATGTAACGTAATTGGAATGAGAAACTGTGGGGAAAGTGGAGTTCTTCGGGCTCTTCTT
GGAAGAAACTTAATGAGGCAGAAGAAAATTCATGATGATCATAAGTGCTACTATGCAATTAACACTGTTTATGTATATGG
ACAAGAGAAATACTTGTTGTTGCATGATATCTCAGAATTGGAATTTCTCACTGAGGCTGAGATCATTTGTGATGTTATGT
GCCTGGTATACAATGTCAGTAATCCCAAATCCTTTGAATACTGTGCCAGGATTTTTAAGAAACACTTTATGGACAGCAGA
ATACTCTGTTTAATCATAGCTGCAAATTCAGACCTGCATGAAGTTAAGCAAGAATATAGTATTTCCCCTACTGATTTCTG
CAGGAAACATAAAATGCCTCCACCATAAGCCTTCAGTTGCAATACTGCTGATGCATCCGGTAAGGATATCTTTGTTAAAT
TGACAACAATGGCCATGTACCCACACGTGACACAAACTGACCTCAAGAGCTCACATTTTGGCTTCAAGCAAGTTTTGGTG
CTACTGTTTTTGCAGTTTGGGGCTTTGCTATGTACAGAGCATTATTGAAACAACAA

Alignment

ORF - retro_ogar_2455 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.83 %
• Parental protein coverage: 69.19 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  DNDGTLNDAELNFFQRICFNTPLAPQALEDVKNVVRKHISDGVADSGLTLKGFLFLHTLFIQRGRHETTW
          DNDGTLNDAELN.FQ.ICFNTPLAPQALEDVKNVVRKHISDGVADSGLTLKGFLFLHTLFIQR.RH.TTW
Retrocopy DNDGTLNDAELNLFQKICFNTPLAPQALEDVKNVVRKHISDGVADSGLTLKGFLFLHTLFIQR-RHKTTW

Parental  TVLRRFGYDDDLDLTPEYLFPLLKIPPDCTTELN-HHAYLFLQSTFDKHDLDRDCALSPDELKDLFKVFP
          TV.R.FGYDDDLDL..EYLF.LLKIPPDCTTELN..HAYLFLQSTFDKHDLDRD.ALSPDELKDLFKVFP
Retrocopy TVPRQFGYDDDLDLMSEYLFNLLKIPPDCTTELN<SHAYLFLQSTFDKHDLDRDRALSPDELKDLFKVFP

Parental  YIPWG-PDVNNTVCTNERGWITYQGFLSQWTLTTYLDVQRCLEYLGYLGYSILTEQESQASAITVTRDKK
          YIPWG..DVNNTVCTN.RGWITYQGFLSQWTL..YLDV..CLEYL.YLGY.ILTEQESQ.SAITVTRDKK
Retrocopy YIPWG>ADVNNTVCTNKRGWITYQGFLSQWTLMAYLDVLQCLEYLDYLGYWILTEQESQVSAITVTRDKK

Parental  IDLQKKQTQRNVFRCNVIGMKNCGKSGVLQALLGRNLMRQKKIRDDHKSYYAINTVYVYGQEKYLLLHDI
          IDLQKKQTQRNVFRCNVIGM.NCG.SGVL.ALLGRNLMRQKKI.DDHK.YYAINTVYVYGQEKYLLLHDI
Retrocopy IDLQKKQTQRNVFRCNVIGMRNCGESGVLRALLGRNLMRQKKIHDDHKCYYAINTVYVYGQEKYLLLHDI

Parental  SESEFLTEAEIICDVVCLVYDVSNPKSFEYCARIFKQHFMDSRIPCLIVAAKSDLHEVKQEYSISPTDFC
          SE.EFLTEAEIICDV.CLVY.VSNPKSFEYCARIFK.HFMDSRI.CLI.AA.SDLHEVKQEYSISPTDFC
Retrocopy SELEFLTEAEIICDVMCLVYNVSNPKSFEYCARIFKKHFMDSRILCLIIAANSDLHEVKQEYSISPTDFC

Parental  RKHKMPPPQAFTCNTADAPSKDIFVKLTTMAMYPHVTQADLKSS-TFWLRASFGATVFAVLGFAMYRALL
          RKHKMPPP.AF.CNTADA..KDIFVKLTTMAMYPHVTQ.DLKSS.TFWL.ASFGATVFAV.GFAMYRALL
Retrocopy RKHKMPPP*AFSCNTADASGKDIFVKLTTMAMYPHVTQTDLKSS<TFWLQASFGATVFAVWGFAMYRALL

Parental  KQR
          KQ.
Retrocopy KQQ

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_2455 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Otolemur garnettii	ENSOGAG00000001194	1 retrocopy	retro_ogar_2455 ,