RetrogeneDB ID: retro_ogar_506

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873522.1:14718995..14720358(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: B5SNQ0_OTOGA
• Ensembl ID: ENSOGAG00000009977
• Aliases: None
• Description: Zinc finger protein 259 (Predicted) [Source:UniProtKB/TrEMBL;Acc:B5SNQ0]

Sequence

>retro_ogar_506
GCCAGTGGGGCTGCAGAACCCATGCCTCTGGCGGCCACCACCACCCAGTTGTCCTCCCCAGGCTTGTTACTTGCCCCAGG
GCACTTGTTCCTGCCCATCATCGCCAGGAGAATTAGCAGCAGCCCAGGGAGATCGAGCCGCTATGCATGAACTGTTACAA
TAACGGCGTAAGGCGCCTCCTGCTCACCAAGATCCCCTTATTCAGAGAAATAATTGTGAACTCCTTTTCCTGTGAGCACT
GTGGCTGGAAAACATGGAGATCCAGTCAGCAGGTAGGATCCAAGACCAGGGAGTGCGTTACACTTTGACTGTTAGGGCCC
TGGAGGATATGCACAGAGAAGTAGTGAAGACTGACTCTGCCACCACAGGGATCCCTGAGCTGGATTGTGAAATTCCTGCC
TTCAGCTAGAAGGGAGCTCTGACCACTGTTGAAGGACTTATCAACCATGCTATCTCTGGCCTGGAGCAGGACCAGCCTAC
ATGAAGGGCAAACAGAGATGCCACAGCTGAAAAAATTGATGTGTTCATTGGAAAACTGAAGGCACTAAAGCAAGTGTCCT
CCCCTTTCACTCTGATCACTGACGATCCTGCAGATAACAGCTTTGTGGAAAACCCCCATCCTCCCCAGAAATATGATGCC
CTGGTGATCACACACTGCAACTGGACCCTACAGCAGGATGAGATGTTGGGGCTCCAAGCAGAAGCACCAGGAGAGAAGCC
AGAAGAGGATCTCAGAAATGAAGTGCTGGAGTTCAACACAAACTGCCCTGAATGCAGTGCCCCAGCTCAGACCAATATGA
AGCTAGTACAAATACCTCACTTTAAGGAGGTTATCATCATAGCTACCACCTGTGAGAACTGTGGGCATCAGACCAATGAG
ATGAAATCTGGAGGAGCAGAAGAGCCATGGGGCACCAGGATCACCCTCCACATCACAGATCCCTCAGATATGACCAGAGA
CCTCCTTAAGTCTGGGACTTGCAGTGTGGAAATTCCAGAGCTAGAATTTGAACTGGGAATGGCTGTCTTCGGGGGCAAGT
TCACCACACTGGAGGAGATGCTGAAAAATGTCTGGGAACGGGTGACCAAGAACTGATTCACACTGGGTGAGAGTTCCAAT
CCTGGCCAGACAGAGACATGGCAGGAGTTTAGCCAGAAGTTGGACCAGATCATCGCGGGTAACATGAAGGCCCACTTTAT
TATGGATGGTCCAGCAGGAAACAGTTACTTGCAGAATGTGTATGCACCTTAAGATGATCCTGAGATGAAGATGGAGCATT
ATAAGTGCATCTTTGACCAAAATGAAGAGCTAGGACTCAATGACATGAAAACAGAGGGCTATGAGGCAGGCCTGGCTCCA
CAG

Alignment

ORF - retro_ogar_506 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.84 %
• Parental protein coverage: 99.35 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  ASGAVEPAPPGAATAPSSAPASSLAPGQLFRPISA-EDDEQQPTEIESLCMNCYNNGITRLLLTKIPFFR
          ASGA.EP.P..A.T...S.P...LAPG.LF.PI.A.....QQP.EIE.LCMNCYNNG..RLLLTKIP.FR
Retrocopy ASGAAEPMPLAATTTQLSSPGLLLAPGHLFLPIIA<QEN*QQPREIEPLCMNCYNNGVRRLLLTKIPLFR

Parental  EIIVSSFSCEHCGWN-NTEIQSAGRIQDQGVRYTLTVRALEDMNREVVKTDSATTGIPELDFEIPAFSQK
          EIIV.SFSCEHCGW..N.EIQSAGRIQDQGVRYTLTVRALEDM.REVVKTDSATTGIPELD.EIPAFS.K
Retrocopy EIIVNSFSCEHCGWK<NMEIQSAGRIQDQGVRYTLTVRALEDMHREVVKTDSATTGIPELDCEIPAFS*K

Parental  GTLTTVEGLINRAISGLEQDQPTRRANKDATAERIDEFIGKLKALKQVASPFTLIIDDPAGNSFVENPHA
          G.LTTVEGLIN.AISGLEQDQPT.RAN.DATAE.ID.FIGKLKALKQV.SPFTLI.DDPA.NSFVENPH.
Retrocopy GALTTVEGLINHAISGLEQDQPT*RANRDATAEKIDVFIGKLKALKQVSSPFTLITDDPADNSFVENPHP

Parental  PQKDDALVITRYNRSLQQDEMLGLQAEAPGEKPEEEDLRNEVLQFNTNCPECNAPAQTNMKLVQIPHFKE
          PQK.DALVIT..N..LQQDEMLGLQAEAPGEKPEE.DLRNEVL.FNTNCPEC.APAQTNMKLVQIPHFKE
Retrocopy PQKYDALVITHCNWTLQQDEMLGLQAEAPGEKPEE-DLRNEVLEFNTNCPECSAPAQTNMKLVQIPHFKE

Parental  VIIMATNCENCGHRTNEVKSGGAVEPLGTRITLHITDPSDMTRDLLKSETCSVEIPELEFELGMAVLGGK
          VII.AT.CENCGH.TNE.KSGGA.EP.GTRITLHITDPSDMTRDLLKS.TCSVEIPELEFELGMAV.GGK
Retrocopy VIIIATTCENCGHQTNEMKSGGAEEPWGTRITLHITDPSDMTRDLLKSGTCSVEIPELEFELGMAVFGGK

Parental  FTTLEGLLKDVRELVTKNPFTLGDSSNPGQTEKLQEFSQKLDQIIEGNTKAHFIMDDPAGNSYLQNVYAP
          FTTLE..LK.V.E.VTKN.FTLG.SSNPGQTE..QEFSQKLDQII.GN.KAHFIMD.PAGNSYLQNVYAP
Retrocopy FTTLEEMLKNVWERVTKN*FTLGESSNPGQTETWQEFSQKLDQIIAGNMKAHFIMDGPAGNSYLQNVYAP

Parental  EDDPEMKVEHYKRTFDQNEELGLNDMKTEGYEAGLAPQ
          .DDPEMK.EHYK..FDQNEELGLNDMKTEGYEAGLAPQ
Retrocopy *DDPEMKMEHYKCIFDQNEELGLNDMKTEGYEAGLAPQ

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_506 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000011907	1 retrocopy	retro_etel_246,
Homo sapiens	ENSG00000109917	1 retrocopy	retro_hsap_3639,
Gorilla gorilla	ENSGGOG00000000664	1 retrocopy	retro_ggor_2455,
Myotis lucifugus	ENSMLUG00000014012	1 retrocopy	retro_mluc_2167,
Macaca mulatta	ENSMMUG00000020287	1 retrocopy	retro_mmul_1808,
Mus musculus	ENSMUSG00000032078	2 retrocopies	retro_mmus_3602, retro_mmus_3701,
Otolemur garnettii	ENSOGAG00000009977	1 retrocopy	retro_ogar_506 ,
Pongo abelii	ENSPPYG00000025914	1 retrocopy	retro_pabe_2986,
Pan troglodytes	ENSPTRG00000004312	1 retrocopy	retro_ptro_2464,
Sus scrofa	ENSSSCG00000015066	1 retrocopy	retro_sscr_1150,