RetrogeneDB ID: retro_ogar_2765

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873662.1:1619061..1619904(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FBXL3
• Ensembl ID: ENSOGAG00000000250
• Aliases: None
• Description: F-box and leucine-rich repeat protein 3 [Source:HGNC Symbol;Acc:13599]

Sequence

>retro_ogar_2765
GACTGGGGGCGTTTGCCTCCCGTGTAGCACTACAGATGTTTCAGTGTCTTCCTTCAATAGACTGGGCCTGTGCATCTTCT
GTATGTAGGAGACGGAATGAAGTTTTTCATGTTACTGACCTTCGGAGAAAGTTCGAATTTGAGCTGAACCAGTCAGCTAC
TTCATATTTTAAGTCCACTCACCCTGATCTCATTCAGCAGATTATTAAAAATCATGCTGCCCATCTCCAATACATCAGTT
TTAAGGCTGACAGTTGTACGAAGTCAGCAGAAGCTGCCTGTGTTATTCTTCCTCAGCTGGTAAACTGTTCTAACCACACC
TAGGGTTTGATTTGAACAGCCAAGCTGAGTTTTATGAATGTGTCAAAGTCTCATTTTGTGTCAGTGCTTATATGGTTGTC
TGTGTCAACTCAAAATTGTTATTGTCAATCAAAATTGCACACATACCAGTGGATGATGCTTCATTGAAGATTCTTGTGGC
TAACGACAGTGACACTCTAAAACTCCTAAAAACGACTAGCTGTCCTCATGTTTCATCTCATGGAATCCTTTGTGTAGCTG
ATTACTGTCAAGGCCTTAGAGAACTGGCATTGAATTACTACATTCTAAGTCTTGAACTTCTAGCACTTTAAAGTAAGACT
CATGTTAACCTTGAACATCTTTGAATTGATGTTGTGAGTGAAAATCCTGGCCAGGTTGAATTTCCTTCTCTTATAAAAAA
TAGTTGGGATGTACCTATTAAACAGTCCCCTAGAGCTAATGTTGTTATGTACTTCTTTTTATATGAAGTGAATTTGAGAC
ATTCTTCAAAGAAGAAACTCCTGTTACTCAGCTCTGTTTTGGA

Alignment

ORF - retro_ogar_2765 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.64 %
• Parental protein coverage: 65.89 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  DWGNL-LQDIILQIFKYLPLLDRAHASQVCRNWNQVFHMPDLWRCFEFELNQPATSYLKATHPELIKQII
          DWG.L......LQ.F..LP..D.A.AS.VCR..N.VFH..DL.R.FEFELNQ.ATSY.K.THP.LI.QII
Retrocopy DWGRL<ASRVALQMFQCLPSIDWACASSVCRRRNEVFHVTDLRRKFEFELNQSATSYFKSTHPDLIQQII

Parental  KRHSNHLQYVSFKVDSSKESAEAACDILSQLVNCSLKTLGLISTARPS-FMDLPKSHF-ISALTVVFVNS
          K.H..HLQY.SFK.DS...SAEAAC.IL.QLVNCS..T.GLI.TA..S.F....K..F..SA..VV.VNS
Retrocopy KNHAAHLQYISFKADSCTKSAEAACVILPQLVNCSNHT*GLI*TAKLS<FYECVKVSFCVSAYMVVCVNS

Parental  KSLSSLKIDDTPVDDPSLKVLVANNSDTLKLLKMSSCPHVSPAGILCVADQCHGLRELALNYHLLSDELL
          K.L.S.KI...PVDD.SLK.LVAN.SDTLKLLK..SCPHVS..GILCVAD.C.GLRELALNY..LS.E.L
Retrocopy KLLLSIKIAHIPVDDASLKILVANDSDTLKLLKTTSCPHVSSHGILCVADYCQGLRELALNYYILSLE-L

Parental  LALSSEKHVRLEHLRIDIVSENPGQTHFHTIQKSSWDAFIRHSPKVNLVMYFFLYE-EEFDPFFRYEIPA
          LAL.S..HV.LEHL.ID.VSENPGQ..F....K.SWD..I..SP..N.VMYFFLYE..EF..FF..E.P.
Retrocopy LAL*SKTHVNLEHL*IDVVSENPGQVEFPSLIKNSWDVPIKQSPRANVVMYFFLYE<SEFETFFKEETPV

Parental  THLYFG
          T.L.FG
Retrocopy TQLCFG

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_2765 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 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000011128	3 retrocopies	retro_ecab_1048, retro_ecab_1049, retro_ecab_1124,
Otolemur garnettii	ENSOGAG00000000250	1 retrocopy	retro_ogar_2765 ,