RetrogeneDB ID: retro_ogar_1353

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873543.1:14583625..14585160(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAR1
• Ensembl ID: ENSOGAG00000005064
• Aliases: None
• Description: fatty acyl CoA reductase 1 [Source:HGNC Symbol;Acc:26222]

Sequence

>retro_ogar_1353
ATGGTTTCCATCCCAGAATACTACAAAGGCAAGAATGTCCTCATCACAGGAGCTACCAGTTTCCTAGGGAAGGTGCTTTT
GGAAAAATTACTGAGGTCTTGTCCTATGGTGAATTCAGTGTATGTTTTGTTGAGGCAAAAAACTGGACAGACAGCATAAG
AGCAAATGGAAAAAGTCCTTAGTGGCAAGCTCTTTGACAGATTGAGAGATGAAAATCCAGATTTTAGAAAGAAAATTAGG
GCAATCAACAGCAAACTCACCCAACCTAAACTGGTGCTTAGTGAGGAAGATAAAGAGGTCATCATAGATTCTGTCAATAT
TATATTTCACTGTGCAGCTACAGTAGGTTTAATGAAAATTTGCAAGATGCTGTTCAGTTAAATGTGATTACTAAGTGACA
GCTTATTTTCCTTGCACAACAAATGAAGAATCTGGAAGTGTTCATGCATGTATCAACAGCATATGCCTACTGCAATCGAA
AGCATATTGATGAAGTAGTCTGTGCACCCCCCCTGTGGATCCTACAAAGCTGATTGATTTTTTAGAGTGGATGGATGATG
GCTTAGTAAATGCTATTAAGCCAAAATTGATAGGAGACAGACCTAATACGTACATATACACAAAGGCATTGGCTAAACAT
GTACAACAAGAAGGAGCGGAGCTAAATGTGGCGATTGTAAGGCCATCAATTGTTGGTGCCAGTTGGAAAGAGTCTTTTCC
AGGATGGACTGATAATGGACCAAGTGGTCTCTTTATTGTGGCAGGGAAAGGAATTCTTTGAACAATCTGTGCCTCCAACA
ATGCCCTTGCAAATCTTGTTCCTGTAGATGTAGTTGTCAACCTGAGTCTTGCAGCAGCCTGGTATTCCAGAGTAAATAGA
ACAAGAAACATCATGATGTATAGTTGCACAACAGGAAGCACTAATCCTTTCCACTAGGGTGAAGTTGAATACCATGTAAT
TTCCACTTTCAAGAGGAATCCTCTTGAACAGGCCTTCAGACAGCCCGATGTAAATCTAACCTCCAATCACCTCGTATATC
ATTACTGGATTGCTGCAAGCCATAAGGCCCCAGCATTCCTGTATGATATATACCTCAGGATGACTGGAAGAAACTCAAGG
ATGGTGAAAACAATAACTTGTCTTCCCAAAGCTATGGTGTTTCTTTAATATTTCACAAGTAATTCTTGGATTTGGAATAC
TGACAATGTCAATATGTTAATGAATCAACTGAACACTGAAGATAAAAAGACCTTCAATATTGATGTATGGCAGTTACATT
GAGCAGAACATATAGAAAACTACTGTATAGGAACCAAGAAATACATATAGAATGAAGAAAATTCTGGTCTCCCAGCAGTT
AGAAAACATCTGCACAAGTTGCAGAACATACGTTATGGTTTTAATACCATCCTTGTGATCCTCATCTGGCGCATTTTTAT
TGCAAGATCACAAATGGCAAGAAAACATCTGGTACTTTGTGGTTAGTCTGTGTTACAAGTTTCTGTCATACTTCAGAGCA
TCCAACACCATGAGA

Alignment

ORF - retro_ogar_1353 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.29 %
• Parental protein coverage: 99.81 %
• Number of stop codons detected: 7
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MVSIPEYYEGKNVLLTGATGFLGKVLLEKLLRSCPKVNSVYVLVRQKAGQTPQERVEEVLSGKLFDRLRD
          MVSIPEYY.GKNVL.TGAT.FLGKVLLEKLLRSCP.VNSVYVL.RQK.GQT..E..E.VLSGKLFDRLRD
Retrocopy MVSIPEYYKGKNVLITGATSFLGKVLLEKLLRSCPMVNSVYVLLRQKTGQTA*EQMEKVLSGKLFDRLRD

Parental  ENPDFREKIIAINSELTQPKLALSEEDKEVIIDSVNIIFHCAATV-RFNENLRDAVQLNVIATRQLILLA
          ENPDFR.KI.AINS.LTQPKL.LSEEDKEVIIDSVNIIFHCAATV.RFNENL.DAVQLNVI...QLI.LA
Retrocopy ENPDFRKKIRAINSKLTQPKLVLSEEDKEVIIDSVNIIFHCAATV<RFNENLQDAVQLNVITK*QLIFLA

Parental  QQMKNLEVFMHVSTAYAYCNRKHIDE-VVYPP-PVDPKKLIDSLEWMDDGLVNDITPKLIGDRPNTYIYT
          QQMKNLEVFMHVSTAYAYCNRKHIDE.V..PP.PVDP.KLID.LEWMDDGLVN.I.PKLIGDRPNTYIYT
Retrocopy QQMKNLEVFMHVSTAYAYCNRKHIDEVVCAPP<PVDPTKLIDFLEWMDDGLVNAIKPKLIGDRPNTYIYT

Parental  KALAEYVVQQEGAKLNVAIVRPSIVGASWKEPFPGWIDNFNGPSGLFIAAGKGILRTMRASNNALADLVP
          KALA..V.QQEGA.LNVAIVRPSIVGASWKE.FPGW.DN..GPSGLFI.AGKGIL.T..ASNNALA.LVP
Retrocopy KALAKHV-QQEGAELNVAIVRPSIVGASWKESFPGWTDN--GPSGLFIVAGKGIL*TICASNNALANLVP

Parental  VDVVVNTSLAAAWYSGVNRPRNIMVYNCTTGSTNPFHWGEVEYHVISTFKRNPLEQAFRRPNVNLTSNHL
          VDVVVN.SLAAAWYS.VNR.RNIM.Y.CTTGSTNPFH.GEVEYHVISTFKRNPLEQAFR.P.VNLTSNHL
Retrocopy VDVVVNLSLAAAWYSRVNRTRNIMMYSCTTGSTNPFH*GEVEYHVISTFKRNPLEQAFRQPDVNLTSNHL

Parental  VYHYWIAVSHKAPAFLYDIYLRMTGRSPRMMKTITRLHKAMVFLEYFTSNSWVWNTDNVNMLMNQLNPED
          VYHYWIA.SHKAPAFLYDIYLRMTGR..RM.KTIT.L.KAMVFL.YFTSNSW.WNTDNVNMLMNQLN.ED
Retrocopy VYHYWIAASHKAPAFLYDIYLRMTGRNSRMVKTITCLPKAMVFL*YFTSNSWIWNTDNVNMLMNQLNTED

Parental  KKTFNIDVRQLHWAEYIENYCMGTKKYVLNEEMSGLPAARKHLNKLRNIRYGFNTILVILIWRIFIARSQ
          KKTFNIDV.QLH.AE.IENYC.GTKKY..NEE.SGLPA.RKHL.KL.NIRYGFNTILVILIWRIFIARSQ
Retrocopy KKTFNIDVWQLH*AEHIENYCIGTKKYI*NEENSGLPAVRKHLHKLQNIRYGFNTILVILIWRIFIARSQ

Parental  MAR-NIWYFVVSLCYKFLSYFRASSTMR
          MAR.NIWYFVVSLCYKFLSYFRAS.TMR
Retrocopy MAR>NIWYFVVSLCYKFLSYFRASNTMR

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_1353 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 12 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003490	2 retrocopies	retro_chof_1358, retro_chof_1733,
Callithrix jacchus	ENSCJAG00000010077	1 retrocopy	retro_cjac_545,
Cavia porcellus	ENSCPOG00000002654	1 retrocopy	retro_cpor_267,
Homo sapiens	ENSG00000197601	1 retrocopy	retro_hsap_1225,
Gorilla gorilla	ENSGGOG00000001180	1 retrocopy	retro_ggor_958,
Macaca mulatta	ENSMMUG00000011990	1 retrocopy	retro_mmul_1301,
Nomascus leucogenys	ENSNLEG00000017695	1 retrocopy	retro_nleu_698,
Oryctolagus cuniculus	ENSOCUG00000004336	2 retrocopies	retro_ocun_1056, retro_ocun_790,
Otolemur garnettii	ENSOGAG00000005064	2 retrocopies	retro_ogar_1353 , retro_ogar_341,
Pongo abelii	ENSPPYG00000003470	1 retrocopy	retro_pabe_1019,
Pan troglodytes	ENSPTRG00000024190	1 retrocopy	retro_ptro_840,
Rattus norvegicus	ENSRNOG00000013176	1 retrocopy	retro_rnor_467,