RetrogeneDB ID: retro_ogar_341

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873520.1:35501464..35503010(+)
• 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_341
ATGGTTTCCATCTCAGAATATTAATGAAGGCAAGAATGTTCTCCTCACAGGAGCTGCCGGTTTTCTAGGAAAGGTGCTTT
TGAAAAAATTGCTGAGGTCTTGTCCTAAGGTGAATTCAGTGTATGTTTTGGTGAGGCAGAAAGCTGGACAGACACCACAA
GAGTGAGTGGAAGAAGTCCTTAGTGGCAAGCTCTTTGACAGATTGAGAGATGAAAATCCAGATTTTAGAGAGAAAATTAT
AACAATCAACAGCGAACTTACCCAACCTAAACTGGCGCTTAGTGAAGAAGATAAAGAGGTCATCATAGATTCTGTCAATA
TTATATTTCACTGTGCAGCTACAGTAAGGTTTAATGAAAATTTGCGAGATGCTGTTCAGTTAAATGTGATTGCTACACGA
CAGCTTATTCTCCTTGCACAACAAATGAAGAATCTGGAAGTGTTCATGCATGTATCAACAGCGTATGCCTACTGCAATCA
AAAGCATATTGATGAAGTAGTCTGTCTACCCCCTGTGGATCCTAAGAAGCTGATTGATTCTTTAGAGTGGATGGATGATG
GCTTAGTAAATGATATTAGGCCAAAATTGATAGGAGACAGACCTAATACGTACATATACACAAAGGCATTGGCAGAGTAT
GTTGTACAGCAAGAAGGAGCAAAGCTAAATGTGGCGATTGTAAGGCCATCAATTCTTGGTGCCAGTTGGAAAGAGCCTTT
TCCAGGATGGATTGATAACTTTAATGGACCAAGTGCTCTCTTTATTGCAGCAGGGAAAGGAATTCTTTGAACAATGCGTG
CCTCCAACAATGCCCTTGCAGATCTTGTTATTGTAGATGTAGTTGTCAACACGAGTCTTGCGGCAGCCTGGTATTCCGGA
GTTAATAGACCAAGAAACATCATGGTGTATAATTGCACAACAGGAAGCACTAATCCTTTCCATTGGGGTGAAGTTGAATA
CCATGTAATTTCCACTTTCAAGAGGAATCCTTTCGAACAGGCCTTCAGATGGCCCAATGTAAATCTAACCTCCAATCACC
TTGTATATCATTACTGGATTGCTGTAAGCCATAAGGCCCCAGCATTCCTGTATGATATCTACCTCAGGATGACTGGAAGA
AGCCCAAGGATGATGAAAACAATAACTCGTCTTCACAAAGCTATGGTGTTTCTTGAATATTTCACAAGTAATTCTTGGGT
TTGGAATACTGACAATGTCAATATGTTAATGAATCGACTAAACCCTGAAGATAAAAAGACCTTCAATATCGGTGTACGGC
AGTTACATTGGGCAGAATATATAGAAAACTACTGTATGGGAACCAAGAAATATGTATTGAATGAAGAAATGTGTGGCCTC
CCAGCAGCTAGAAAACATCTGAACAAGTTGCGCAACATACGTTATGGTTTTAATACTATCCTTGTGATCCTCATCTGGCA
CATTTTTATTGCAAGATCACAAATGGCAAGAAACATCTGGTACTTTGTGGTTAGTTTGTGTTACAAGTTTCTGTCATACT
TCAGAGCATCAAGCACCATGAGATAC

Alignment

ORF - retro_ogar_341 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.93 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVSIPEY-YEGKNVLLTGATGFLGKVLLEKLLRSCPKVNSVYVLVRQKAGQTPQERVEEVLSGKLFDRLR
          MVSI.EY..EGKNVLLTGA.GFLGKVLL.KLLRSCPKVNSVYVLVRQKAGQTPQE.VEEVLSGKLFDRLR
Retrocopy MVSISEY>NEGKNVLLTGAAGFLGKVLLKKLLRSCPKVNSVYVLVRQKAGQTPQE*VEEVLSGKLFDRLR

Parental  DENPDFREKIIAINSELTQPKLALSEEDKEVIIDSVNIIFHCAATVRFNENLRDAVQLNVIATRQLILLA
          DENPDFREKII.INSELTQPKLALSEEDKEVIIDSVNIIFHCAATVRFNENLRDAVQLNVIATRQLILLA
Retrocopy DENPDFREKIITINSELTQPKLALSEEDKEVIIDSVNIIFHCAATVRFNENLRDAVQLNVIATRQLILLA

Parental  QQMKNLEVFMHVSTAYAYCNRKHIDEVVYPPPVDPKKLIDSLEWMDDGLVNDITPKLIGDRPNTYIYTKA
          QQMKNLEVFMHVSTAYAYCN.KHIDEVV..PPVDPKKLIDSLEWMDDGLVNDI.PKLIGDRPNTYIYTKA
Retrocopy QQMKNLEVFMHVSTAYAYCNQKHIDEVVCLPPVDPKKLIDSLEWMDDGLVNDIRPKLIGDRPNTYIYTKA

Parental  LAEYVVQQEGAKLNVAIVRPSIVGASWKEPFPGWIDNFNGPSGLFIAAGKGILRTMRASNNALADLVPVD
          LAEYVVQQEGAKLNVAIVRPSI.GASWKEPFPGWIDNFNGPS.LFIAAGKGIL.TMRASNNALADLV.VD
Retrocopy LAEYVVQQEGAKLNVAIVRPSILGASWKEPFPGWIDNFNGPSALFIAAGKGIL*TMRASNNALADLVIVD

Parental  VVVNTSLAAAWYSGVNRPRNIMVYNCTTGSTNPFHWGEVEYHVISTFKRNPLEQAFRRPNVNLTSNHLVY
          VVVNTSLAAAWYSGVNRPRNIMVYNCTTGSTNPFHWGEVEYHVISTFKRNP.EQAFR.PNVNLTSNHLVY
Retrocopy VVVNTSLAAAWYSGVNRPRNIMVYNCTTGSTNPFHWGEVEYHVISTFKRNPFEQAFRWPNVNLTSNHLVY

Parental  HYWIAVSHKAPAFLYDIYLRMTGRSPRMMKTITRLHKAMVFLEYFTSNSWVWNTDNVNMLMNQLNPEDKK
          HYWIAVSHKAPAFLYDIYLRMTGRSPRMMKTITRLHKAMVFLEYFTSNSWVWNTDNVNMLMN.LNPEDKK
Retrocopy HYWIAVSHKAPAFLYDIYLRMTGRSPRMMKTITRLHKAMVFLEYFTSNSWVWNTDNVNMLMNRLNPEDKK

Parental  TFNIDVRQLHWAEYIENYCMGTKKYVLNEEMSGLPAARKHLNKLRNIRYGFNTILVILIWRIFIARSQMA
          TFNI.VRQLHWAEYIENYCMGTKKYVLNEEM.GLPAARKHLNKLRNIRYGFNTILVILIW.IFIARSQMA
Retrocopy TFNIGVRQLHWAEYIENYCMGTKKYVLNEEMCGLPAARKHLNKLRNIRYGFNTILVILIWHIFIARSQMA

Parental  RNIWYFVVSLCYKFLSYFRASSTMRY
          RNIWYFVVSLCYKFLSYFRASSTMRY
Retrocopy RNIWYFVVSLCYKFLSYFRASSTMRY

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_341 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,