RetrogeneDB ID: retro_tsyr_2147

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_96023:462..1317(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000011769
• Aliases: None
• Description: None

Sequence

>retro_tsyr_2147
AAGGGGCCTGTGGTTGGTATTGATTTCAGCATCACCTACTCCTGTGTGGGTGTTTTCCAGCATGGAAAAGTAGAGATAAT
TGCCAATGATCAGGGAAACCGAACCACTCCAAGTTACGTCGCCTTTACTGATACTGAACGATTGATCGGTGACGCCGCAA
AGAATCAAGTTGCGATGAACCCCACCAACAGGGTTTTCAATGCCAAACGTCTGATTGGACGCAGATTTGATGATGCCTTT
GTCCAGTCTGATATGAAGCATTGGCCGTTCATGGTTGTGAATGATGCAGGCAGGCCCAAGGTACAAGTAGAATACAAGGG
AGAGACAAAAAGCTTCTATCCAGAGGAGGTGTCATCTATGGTTCTGACAAAGATGAAGGAAATTGCTGAGGTCTATCTTG
GGAAGACTGTTACCAATGCTGTGGTCACAGTGCCGGCTTATTTTAATGACTCTCAACGGCAGGCTACCAAAGATGCTGGA
ACTATTGCTGGCCTCAATGTACTTAGAATTATCAATGAGCCAACTGCTGCTGCAATTGCTTATGGCTTAGACAAAAAGGT
TGGAGCTGAAAGAAATGTGCTGATCTTGGACCTAGGAGGTGGCACTTTTGACGTGTCAATCCTCACTATTAAGGATGGAA
TCTCTGAAGTCAAGTCTATAGCTGGAGACACCCATTTAGGTGGAGAAGACTTTGACAACCGAATGGTCAACCATTTCATT
GCTGAGTTTAGGCGTAAGCATAAGAAGGACATCAGTGAGAACAAGAGGGCTGTCCGGTGTCTCCGTACTGCTTGTGAACA
TGCTAAGCGTACTCTCTCTTCCAGTACTCAGGCCAGTATTGAGATCGATTCTCTC

Alignment

ORF - retro_tsyr_2147 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.2 %
• Parental protein coverage: 50.18 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KGAVVGIDLGTTNSCVAVMEGKQAKVLENAEGARTTPSVVAFTADGERLVGMPAKRQAVTNPNNTFYATK
          KG.VVGID...T.SCV.V..........N..G.RTTPS.VAFT.D.ERL.G..AK.Q...NP.N.....K
Retrocopy KGPVVGIDFSITYSCVGVFQHGKVEIIANDQGNRTTPSYVAFT-DTERLIGDAAKNQVAMNPTNRVFNAK

Parental  RLIGRRYDDPEVQKDIKNVPFKIVR-ASNGDAWVEAHG--KLYSPSQIGAFVLMKMKETAENYLGHTAKN
          RLIGRR.DD..VQ.D.K..PF..V..A......VE..G..K...P......VL.KMKE.AE.YLG.T..N
Retrocopy RLIGRRFDDAFVQSDMKHWPFMVVNDAGRPKVQVEYKGETKSFYPEEVSSMVLTKMKEIAEVYLGKTVTN

Parental  AVITVPAYFNDSQRQATKDAGQISGLNVLRVINEPTAAALAYGLDK--SEDKVIAVYDLGGGTFDISILE
          AV.TVPAYFNDSQRQATKDAG.I.GLNVLR.INEPTAAA.AYGLDK...........DLGGGTFD.SIL.
Retrocopy AVVTVPAYFNDSQRQATKDAGTIAGLNVLRIINEPTAAAIAYGLDKKVGAERNVLILDLGGGTFDVSILT

Parental  IQKGVFEVKSTNGDTFLGGEDFDQALLRHIVKEFKRETGVDLTKDNMALQRVREAAEKAKCELSSSVQTD
          I..G..EVKS..GDT.LGGEDFD.....H...EF.R....D......A....R.A.E.AK..LSSS.Q..
Retrocopy IKDGISEVKSIAGDTHLGGEDFDNRMVNHFIAEFRRKHKKDISENKRAVRCLRTACEHAKRTLSSSTQAS

Parental  INLPYL
          I....L
Retrocopy IEIDSL

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_2147 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000014493	1 retrocopy	retro_dord_304,
Macropus eugenii	ENSMEUG00000016000	1 retrocopy	retro_meug_953,
Ornithorhynchus anatinus	ENSOANG00000002817	1 retrocopy	retro_oana_82,
Tupaia belangeri	ENSTBEG00000015361	1 retrocopy	retro_tbel_2365,
Tarsius syrichta	ENSTSYG00000011769	1 retrocopy	retro_tsyr_2147 ,
Vicugna pacos	ENSVPAG00000006332	1 retrocopy	retro_vpac_524,