RetrogeneDB ID: retro_tsyr_389

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_108477:594..1929(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MAN1A1
• Ensembl ID: ENSTSYG00000012261
• Aliases: None
• Description: mannosidase, alpha, class 1A, member 1 [Source:HGNC Symbol;Acc:6821]

Sequence

>retro_tsyr_389
AAAATTAAAGAGATGATGAAACATGCCTGGGATAATTATAGGACATATGGGTGGGGACATAATGAACTCAGGCCTATTGC
AAGGGAAGGATACTCCACTAAAATATTTGGAAGTTCACAGTTGGGTGCTACCATAGTAGATGCTTTGGATACCCTTTACA
TCATGGGACTTCACGATGAATTCCTAGATGCACAAAAATGGGTTGAAGAAAACCTTGATTTCAGTGTGAATTCAGAGGTG
TCCGTGTTTGAAGTCAACATTCGATTTATTGGAGGCCTGCTTGCTGCATATTACCTTTCAGGAGAAGAGATATTCAAGGT
TAAAGCAGTGCAGTTGGCTCAGAAACTCCTTCCCGCCTTCAACACACCTACTGGGATTCCTTGGGCAATGGTGAATTTGA
AAAGTGGAATAGGATGGAACTGGAGCTGGGCCTCTGCAGGCAGCAGCATTCTGGCTGAATTTGGGACTCTGCACATGGAG
TTCGTCCACCTCAGCTACTTGACGGGAGACCTGGTTTACTACAAGAAGGTCATGCACATTCGGAAACTACTTCAGAAAAT
GGATCGTCCAAATGGCCTTTATCCAAATTATTTGAACCCAAGAACAGGGCGCTGGGGTCAGTATCATATATCCGTTGGTA
GTCTGGGAGACAGTTTTTATGAGTACTTGCTGAAAGCATGGTTGATGTCAGACAAAACAGACTATGAGGCAAGGAAGATG
TACGATGATGCCATCGAGGCTATAGAAAAACATCTTATTAAGAAATCCCATGGAGGTCTTGTCTTTATTGGAGAATGGAA
GAATGGGCACTTGGAAAAGAAGATGGAACACTTGGCCTGCTTTACTGGGGGAATGTTTGCACTAGGAGCAGATGGTTCCA
GAACAGATAAAGCTGGTCACTATTTAGAGCTAGGGGCGGAAATTGCACGCACATGTCATGAGTCATATGACAGAACTGCA
TTAAAGCTAGGTCCTGAATCATTCAAGTTTGATGGTGCAGTGGAGGCTGTGGCTGTCCGGCAGGCTGAAAAGTATTATAT
CCTCCGTCCAGAAGTAATTGAAACCTACTGGTACCTATGGCGATTCACTCACAATCCCAAATACAGGCAGTGGGGCTGGG
AAGCAACACTGGCCATTGAAAAGTATTGCCGAGTCAGTGGCGGGTTTTCTGGAGTTAAGGATGTATATTCCTCTACTCCT
ACACATGATGATGTACAGCAGAGCTTCTTTCTTGCTGAAACATTAAAATATTTGTATCTGCTCTTCTCCGATGATGACCT
TTTACCTTTAGACCACTGGGTGTTTAATACAGAGGCTCACCCTCTGCCTGTGTTA

Alignment

ORF - retro_tsyr_389 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.34 %
• Parental protein coverage: 93.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EITWMMKHAWNNYKSYAWGLNELKPISKEGHSSSLFGNIK-GATIVDALDTLFIMEMKDEFQEAKSWIEE
          .I..MMKHAW.NY..Y.WG.NEL.PI..EG.S...FG....GATIVDALDTL.IM...DEF..A..W.EE
Retrocopy KIKEMMKHAWDNYRTYGWGHNELRPIAREGYSTKIFGSSQLGATIVDALDTLYIMGLHDEFLDAQKWVEE

Parental  NXXXXXNAEISVFEVNIRFVGGLLSAYYLSGEEIFRKKAVELGIKLLPAFHTPSGIPWALLNMKSGIGRN
          N.....N.E.SVFEVNIRF.GGLL.AYYLSGEEIF..KAV.L..KLLPAF.TP.GIPWA..N.KSGIG.N
Retrocopy NLDFSVNSEVSVFEVNIRFIGGLLAAYYLSGEEIFKVKAVQLAQKLLPAFNTPTGIPWAMVNLKSGIGWN

Parental  WPWASGGSSILAEFGTLHLEFMHLSHLSGNPIFAEKVMNIRTVLNKLEKPQGLYPNYLNPSSGQWGQHHV
          W.WAS.GSSILAEFGTLH.EF.HLS.L.G......KVM.IR..L.K...P.GLYPNYLNP..G.WGQ.H.
Retrocopy WSWASAGSSILAEFGTLHMEFVHLSYLTGDLVYYKKVMHIRKLLQKMDRPNGLYPNYLNPRTGRWGQYHI

Parental  SVGGLGDSFYEYLLKAWLMSDKTDLEAKKMYFDAIQAIETHLIRKSSSGLTYIAEWKGGLLEHKMGHLTC
          SVG.LGDSFYEYLLKAWLMSDKTD.EA.KMY.DAI.AIE.HLI.KS..GL..I.EWK.G.LE.KM.HL.C
Retrocopy SVGSLGDSFYEYLLKAWLMSDKTDYEARKMYDDAIEAIEKHLIKKSHGGLVFIGEWKNGHLEKKMEHLAC

Parental  FAGGMFALGADGAPEGLAQHYLELGAEIARTCHESYNRTFMKLGPEAFRFDGGVEAIATRQNEKYYILRP
          F.GGMFALGADG.....A.HYLELGAEIARTCHESY.RT..KLGPE.F.FDG.VEA.A.RQ.EKYYILRP
Retrocopy FTGGMFALGADGSRTDKAGHYLELGAEIARTCHESYDRTALKLGPESFKFDGAVEAVAVRQAEKYYILRP

Parental  EVVETYLYMWRLTHDPKYRKWAWEATEALESHCRVNGGYSGLRDVYLLHESYDDVQQSFFLAETLKYLYL
          EV.ETY.Y.WR.TH.PKYR.W.WEAT.A.E..CRV.GG.SG..DVY......DDVQQSFFLAETLKYLYL
Retrocopy EVIETYWYLWRFTHNPKYRQWGWEATLAIEKYCRVSGGFSGVKDVYSSTPTHDDVQQSFFLAETLKYLYL

Parental  IFSDDDLLPLEHWIFNTEAHLLPIL
          .FSDDDLLPL.HW.FNTEAH.LP.L
Retrocopy LFSDDDLLPLDHWVFNTEAHPLPVL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_389 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000012261	1 retrocopy	retro_tsyr_389 ,