RetrogeneDB ID: retro_tsyr_8

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_41422:129..1683(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000007762
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ALDH1A2
• Ensembl ID: ENSTSYG00000004549
• Aliases: None
• Description: aldehyde dehydrogenase 1 family, member A2 [Source:HGNC Symbol;Acc:15472]

Sequence

>retro_tsyr_8
ATGCTGCGCTTCCTGGTCCCCCGGCTACTTTGCCTCCACGGCAGGATCGCCCCATACTCCTCGGCAGCAGCCCTCCCCAA
CCCCATCTTGAAGCCAGACATCTGCTACAGTCAGCTGTTCATCAATAATGAGTGGCAAGATGCGCTCAGCAAGAAGACTT
TCCCCACAATCAACCCCACCACCGGGGAGGTTATCGGGCACGTGGCTGAAGGGGACGGGGCTGATGTGGATCGAGCAGTG
AAAGCAGCCCGGGAGGCCTTCCGCCTGGGGTCCCCATGGCGCCGCATGGATGCCTCTGAGCGGGGCCAGCTGCTGAACCG
CCTGGCCGACCTAGTGGAGCGGGATCGTGTCTACTTGGCCTCGCTAGAGACCTTGGATAATGGGAAACCTTTCCAAGAGT
CTTACGCCTTGGACCTGGATGAAGTTATCAAGGTGTACCGCTACTTTGCTGGCTGGGCTGACAAGTGGCACGGCAAGACC
ATCCCCATGGATGGTGAGCATTTCTGCTTCACGCGGCATGAGCCCGTCGGTGTCTGTGGCCAGATCATCCCATGGAACTT
CCCCTTGGTCATGCAGGGCTGGAAACTGGCTCCAGCGCTTGCCACAGGCAACACTGTGGTTATGAAGGTGGCGGAGCAGA
CCCCCCTCTCTGCCCTGTACTTGGCCTCCCTCATCAAGGAGGCTGGCTTTCCCCCTGGGGTGGTGAACATCATCACAGGC
TATGGTCCAACAGCAGGAGCAGCGATTGCACAGCACGTGGATATTGACAAGGTTGCCTTCACTGGCTCCACCGAGGTGGG
CCACCTGATCCAGAAGGCGGCTGGCGATTCCAACCTTAAGAGAGTCACCCTGGAGTTGGGTGGCAAGAGCCCCAGCATCG
TGCTGGCAGATGCTAACATGGACCATGCTGTGGAGCAGTGCCACGAAGCCCTCTTCTTCAACATGGGCCAGTGCTGCTGT
GCTGGTTCCCGGACCTTCGTGGAAGAATCCATCTATGATGAGTTTCTCGAGAGGACGGTAGAGAAAGCAAAGCAGAGGAA
AGTGGGGAACCCCTTCCAGCTGGACACTCAGCAGGGGCCCCAGGTGGACAAGGAGCAGTTTGAACGAATCCTGGGCTACA
TCCAGCTTGGCCAGAAAGAGGGAGCAAAACTTCTCTGTGGCGGGGAGCGTTTTGGGGACCGTGGTTTCTTTATCAAGCCT
ACGGTCTTTGGTGGCGTTCAGGATGACATGAGGATCGCCAAAGAGGAGATCTTTGGGCCTGTGCAGCCCTTGTTCAAGTT
CAGGAAGATTGAGGAAGTGATTGAGAGGGCCAACAACACCAGATATGGCCTGGCTGCAGCCGTGTTCACCCAGGACCTGG
ACAAGGCCATGTACTTCACCCAGGCACTCCAGGCTGGGACCGTGTGGGTCAACACCTACAACATTGTCACCTGCCACACA
CCATTTGGAGGCTTTAAGGAATCTGGCAATGGGAGGGAGCTAGGAGAGGATGGGCTTAAGGCCTACACAGAGGTGAAGAC
GGTTACCATCAAAGTTCCTCAGAAGAACTCATAA

Alignment

ORF - retro_tsyr_8 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.73 %
• Parental protein coverage: 99.6 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LPSPTPNLEIKYTKIFINNEWQNSESGRVFPVYNPATGEQVCEVQEADKADIDKAVQAARLAFSLGSVWR
          LP.P.....I.Y...FINNEWQ...S...FP..NP.TGE....V.E.D.AD.D.AV.AAR.AF.LGS.WR
Retrocopy LPNPILKPDICYSQLFINNEWQDALSKKTFPTINPTTGEVIGHVAEGDGADVDRAVKAAREAFRLGSPWR

Parental  RMDASERGRLLDKLADLVERDRAVLATMESLNGGKPFLQAFYVDLQGVIKTLRYYAGWADKIHGMTIPVD
          RMDASERG.LL..LADLVERDR..LA..E.L..GKPF......DL..VIK..RY.AGWADK.HG.TIP.D
Retrocopy RMDASERGQLLNRLADLVERDRVYLASLETLDNGKPFQESYALDLDEVIKVYRYFAGWADKWHGKTIPMD

Parental  GDYFTFTRHEPIGVCGQIIPWNFPLLMFTWKIAPALCCGNTVVIKPAEQTPLSALYMGVLIKEAGFPPGV
          G..F.FTRHEP.GVCGQIIPWNFPL.M..WK.APAL..GNTVV.K.AEQTPLSALY...LIKEAGFPPGV
Retrocopy GEHFCFTRHEPVGVCGQIIPWNFPLVMQGWKLAPALATGNTVVMKVAEQTPLSALYLASLIKEAGFPPGV

Parental  INILPGYGPTAGAAIASHIGIDKIAFTGSTKVGKLIQEAAGRSNLKRVTLELGGKSPNIIFADADLDYAV
          .NI..GYGPTAGAAIA.H..IDK.AFTGST.VG.LIQ.AAG.SNLKRVTLELGGKSP.I..ADA..D.AV
Retrocopy VNIITGYGPTAGAAIAQHVDIDKVAFTGSTEVGHLIQKAAGDSNLKRVTLELGGKSPSIVLADANMDHAV

Parental  EQAHQGVFFNQGQCCTAGSRIFVEESIYEEFVRRSVERAKRRIVGSPFDPTTEQGPQIDKKQYNKILELI
          EQ.H...FFN.GQCC.AGSR.FVEESIY.EF..R.VE.AK.R.VG.PF...T.QGPQ.DK.Q...IL..I
Retrocopy EQCHEALFFNMGQCCCAGSRTFVEESIYDEFLERTVEKAKQRKVGNPFQLDTQQGPQVDKEQFERILGYI

Parental  QSGVAEGAKLECGGKGLGRKGFFIEPTVFSNVTDDMRIAKEEIFGPVQEILRFKTMDEVIERANNSDFGL
          Q.G..EGAKL.CGG...G..GFFI.PTVF..V.DDMRIAKEEIFGPVQ....F....EVIERANN...GL
Retrocopy QLGQKEGAKLLCGGERFGDRGFFIKPTVFGGVQDDMRIAKEEIFGPVQPLFKFRKIEEVIERANNTRYGL

Parental  VAAVFTNDINKALTVSSAMQAGTVWINCYNALNAQSPFGGFKMSGNGREMGEFGLREYSEVKTVTVKIPQ
          .AAVFT.D..KA.....A.QAGTVW.N.YN......PFGGFK.SGNGRE.GE.GL..Y.EVKTVT.K.PQ
Retrocopy AAAVFTQDLDKAMYFTQALQAGTVWVNTYNIVTCHTPFGGFKESGNGRELGEDGLKAYTEVKTVTIKVPQ

Parental  KNS
          KNS
Retrocopy KNS

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_8 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 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006418	1 retrocopy	retro_chof_1106,
Erinaceus europaeus	ENSEEUG00000012262	1 retrocopy	retro_eeur_15,
Monodelphis domestica	ENSMODG00000008641	1 retrocopy	retro_mdom_254,
Pan troglodytes	ENSPTRG00000007113	1 retrocopy	retro_ptro_118,
Sorex araneus	ENSSARG00000012720	1 retrocopy	retro_sara_40,
Sarcophilus harrisii	ENSSHAG00000012217	1 retrocopy	retro_shar_111,
Tarsius syrichta	ENSTSYG00000004549	1 retrocopy	retro_tsyr_8 ,
Tursiops truncatus	ENSTTRG00000002361	1 retrocopy	retro_ttru_932,