RetrogeneDB ID: retro_ogar_884

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873530.1:7540513..7542413(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KHSRP
• Ensembl ID: ENSOGAG00000008073
• Aliases: None
• Description: KH-type splicing regulatory protein [Source:HGNC Symbol;Acc:6316]

Sequence

>retro_ogar_884
GGCCCTCCGTTGGGCCCGCAGGGCACAGGGGACTGGGCTGGTGGAAGCCCCAGCAGCGGCAGCCTGGGCGGGGGTTCAGC
TGCAGGGCCCCACCAGCTGCCCAGTGGAGTGGGTGGCTTGGGAATCAGCAAGGACACCTTCGCCCATGTCGTGCAGTGGG
CCCACCAGATCACAGCCAAAATTGAGGGCGATGTCGCTACAACAGTGAATAACAGCACTCCTGATTTTGGTTTGGGGGGC
CAAAAGAGACAGTTGGAAGATGGAGATCAACCAGAGAGCAAGAAACTGGCTTCCCAGGGAGACTCCATCAGTTCTCAGCT
TGGACCCATCCATCCTCCTCCAAGGACTTCAAGGACAGAAGAGTACAGAGTCCCAGATGGCATTGTGGGCCTAATCACTG
GCAGAGGAGGTGAACAAATCAACAAAATCCAACAGGATTCTGGCTGCAAAGTACAGATTTCTCCAGACAGCGGTGGCTTA
CCCAACTGCAGTGTGTCCTTGACAGGAGCCCCAGAATCTGTCCAGAAAGCAAGGATGATGCTGGATGACATGTCTCAGAG
TCGTGGGGGACCCCCAGGACAGTTCCATGACAATGCCAATGGGGGGCAGAATGGCACCATGCAGAAGATCATGATCCTGG
CAGGGAAGGCTGACCTGGTCATTGGCAAGGGCTGGGATACCATCAAGCAGCTGCAGGAACCAGCTGGTATGAAGATGATT
TTAATTCAGGATGGTTCCCAGAACACAAATGTGGACAAGCCTCTTCGGATCATTGGAGACCCTTACAAAGTGCAGCAAGC
TTGCGAGATGGTAATAGACATCCTCCGGGAACGTGAACAAGGCAGCTTTGGAGAGCGGAATGAGTATGGATCTTGGATTG
GCAGAGATATTGATGTGCCAGTGCCCAGGCATTCTGTTGGTGTGGTCATCGGCTGGAGTGGAGAAATTATCAAGAAGATC
CAGAACGATGCTGGCATGCGGGCACAGTTTAAACAAGATGATGGGACAGGTCCTGAGAAGATAGCCCACATAATGGGACC
CCCGGACAGGTGTAAGCATGCCGCCTGGATCATCAACGGCCTCCTTCAGAGCCTCAGAAGTGGTCCCCCAGGCCCTCCAG
GAGATCCTGGCATGCCCCCAGGGGGCTGGGGAGGCCAAGGCAACTGGGGTCCCCCTGGTGGGGAGATGACTTTCTCCATC
CCCATTCACAAGTGCGAGTGGGTCATTGGCTGAGGTAGCGAGAATGTGAAAGCCATAAACCAGCAGACAGGCGCCTTCAT
AGAGATCTCCTGGCAGCTGCCACCCAACAGGGACCCCCAACTTCAAATTGTTCATCATCCAGGGCTCACCCCAGCATATG
GACCACGCCAAGCAGCTCATTGAGGAGAAAATTGAGGTTCCTCTTTGCCCAATGGGACCAGGTCCTGGGAGACTGGGCCC
TGCGGGCCCAATGGGGCCCTTCAACCCCAGGCCCTTCAACCAGGGGCCACCAGGGCCCCCGCCTCATGCCAGGGGGTCCC
TTCCTCACCAGTACCCACCCCAGGGATGGGGCAACACCTACCCCCAGTGGCAACCATGTGCACCTCATGACCCAAGCAAA
GCGGCTGCAGCAGCTGCAGACCCCAATGCTGCTTGGGCCACCTACTACTCACACCACTACCAGCAGCCCCCAGGCCCTAT
GCCAGGCCCAGCGCCAGCCCCCACAGCCCCACCTGCTCAGGGTGAGCCCCGTCAGTCCCTACCCACCCGCCAGTCAGACT
TCACTAAGGCTTGGGAAGAGTACCACAAGATGGGCCAGGAGCCCCAGCAGCCTGGAGTGCCCCCACAGCAGGACTACACA
AAGGCCTGGGAGGAGTACTACAAGAAGCAGGTACAAGTGGCCACCAGTGGGGGACCTGGA

Alignment

ORF - retro_ogar_884 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.13 %
• Parental protein coverage: 89.61 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GPPPGPPGTGDRGGGGPSGGGPGGGGSAGGPSQPPGGGGPGIRKDAFADAVQRARQIAAKIGGDAATTVN
          GPP.GP.GTGD..GG.PS.G..GGG..AG....P.G.GG.GI.KD.FA..VQ.A.QI.AKI.GD.ATTVN
Retrocopy GPPLGPQGTGDWAGGSPSSGSLGGGSAAGPHQLPSGVGGLGISKDTFAHVVQWAHQITAKIEGDVATTVN

Parental  NSTPDFGFGGQKRQLEDGDQPESKKLASQGDSISSQLGPIHPPPRTSMTEEYRVPDGMVGLIIGRGGEQI
          NSTPDFG.GGQKRQLEDGDQPESKKLASQGDSISSQLGPIHPPPRTS.TEEYRVPDG.VGLI.GRGGEQI
Retrocopy NSTPDFGLGGQKRQLEDGDQPESKKLASQGDSISSQLGPIHPPPRTSRTEEYRVPDGIVGLITGRGGEQI

Parental  NKIQQDSGCKVQISPDSGGLPERSVSLTGAPESVQKAKMMLDDIVSRGRGGPPGQFHDNANGGQNGTVQE
          NKIQQDSGCKVQISPDSGGLP..SVSLTGAPESVQKA.MMLDD..S..RGGPPGQFHDNANGGQNGT.Q.
Retrocopy NKIQQDSGCKVQISPDSGGLPNCSVSLTGAPESVQKARMMLDDM-SQSRGGPPGQFHDNANGGQNGTMQK

Parental  IMIPAGKAGLVIGKGGETIKQLQERAGVKMILIQDGSQNTNVDKPLRIIGDPYKVQQACEMVMDILRERD
          IMI.AGKA.LVIGKG..TIKQLQE.AG.KMILIQDGSQNTNVDKPLRIIGDPYKVQQACEMV.DILRER.
Retrocopy IMILAGKADLVIGKGWDTIKQLQEPAGMKMILIQDGSQNTNVDKPLRIIGDPYKVQQACEMVIDILRERE

Parental  QGGFGDRNEYGSRIGGGIDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDDGTGPEKIAHIMGPPD
          QG.FG.RNEYGS.IG..IDVPVPRHSVGVVIG.SGE.IKKIQNDAG.R.QFKQDDGTGPEKIAHIMGPPD
Retrocopy QGSFGERNEYGSWIGRDIDVPVPRHSVGVVIGWSGEIIKKIQNDAGMRAQFKQDDGTGPEKIAHIMGPPD

Parental  RCEHAARIINDLLQSLRSGPPGPPGGPGMPPGGRGRGRGQGNWGPPGGEMTFSIPTHKCGLVIGRGGENV
          RC.HAA.IIN.LLQSLRSGPPGPPG.PGMPPGG.G...GQGNWGPPGGEMTFSIP.HKC..VIG.G.ENV
Retrocopy RCKHAAWIINGLLQSLRSGPPGPPGDPGMPPGGWG---GQGNWGPPGGEMTFSIPIHKCEWVIG*GSENV

Parental  KAINQQTGAFVEISRQLPPN-GDPNFKLFIIRGSPQQIDHAKQLIEEKIEGPLCPVGPGPGGPGPAGPMG
          KAINQQTGAF.EIS.QLPPN.G.PNFKLFII.GSPQ..DHAKQLIEEKIE.PLCP.GPGPG..GPAGP..
Retrocopy KAINQQTGAFIEISWQLPPN>GTPNFKLFIIQGSPQHMDHAKQLIEEKIEVPLCPMGPGPGRLGPAGPXX

Parental  PFNPGPFNQGPPGAPPHAGGPPPHQYPPQGWGNTYPQWQPPAPHDPSKAAAAAADPNAAWAAYYSHYYQQ
          ...........PG.PPHA.G..PHQYPPQGWGNTYPQWQP.APHDPSKAAAAAADPNAAWA.YYSH.YQ.
Retrocopy XXXXXXXXXXXPGPPPHARGSLPHQYPPQGWGNTYPQWQPCAPHDPSKAAAAAADPNAAWATYYSHHYQX

Parental  PPGPVPGPAPAPAAPPAQGEPPQPPPTGQSDYTKAWEEYYKKIGQQPQQPGAPPQQDYTKAWEEYYKKQA
          ...............PAQGEP.Q..PT.QSD.TKAWEEY..K.GQ.PQQPG.PPQQDYTKAWEEYYKKQ.
Retrocopy XXXXXXXXXXXXXXXPAQGEPRQSLPTRQSDFTKAWEEYH-KMGQEPQQPGVPPQQDYTKAWEEYYKKQV

Parental  QVATSGGPG
          QVATSGGPG
Retrocopy QVATSGGPG

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_884 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000016627	1 retrocopy	retro_cjac_460,
Homo sapiens	ENSG00000088247	1 retrocopy	retro_hsap_4142,
Macaca mulatta	ENSMMUG00000005597	1 retrocopy	retro_mmul_1185,
Monodelphis domestica	ENSMODG00000001952	1 retrocopy	retro_mdom_1386,
Otolemur garnettii	ENSOGAG00000008073	1 retrocopy	retro_ogar_884 ,
Pan troglodytes	ENSPTRG00000010364	1 retrocopy	retro_ptro_2814,