RetrogeneDB ID: retro_tsyr_1927

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_680:39014..39896(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CNOT2
• Ensembl ID: ENSTSYG00000012927
• Aliases: None
• Description: CCR4-NOT transcription complex, subunit 2 [Source:HGNC Symbol;Acc:7878]

Sequence

>retro_tsyr_1927
AGTGAAAATGTGACAGGATTGGACCTTTCAGATTTTCCAGCATTGGCAGGCCGAAACAGAGGGGAAGGAAGTGGTAACCC
AACTCCATTAATAAACCCCTTGACTGGAAGAGCTCTTTATGTGGGAATGGTAACAAAACCAGCAAATGAGCAATCCCAGG
TCTTCTCAATACCCAGCGAAGATTTTCCAGCATTACCTGGTTCCAGCTATAAAGATCCAACATCAAGTAATGATGACAGT
AAATCTAATTTGAATACATGTGGCAAGACAACTTCAAGTACAGATGGACCCAAATTCCCTGGAGATAAAAGTTCAACAAC
ACAAAATAATAACCAGCAGAAAAAAGGGATCCAGGTGTTACCTGATGGTCGGGTTACTAACATTCCTCAAGGGATTGTGA
CGGACCAATTTGGAATGATTGACCTGTTAACATTTATTGGGGCAGCAGAGACAGACCCAGGAATGGTACATCTTGCATTA
GGAAGTGACTTAACAACATTAGGCCTCAATCTGAACTCTCCTGAAAATCTCTACCCCAAATTTACATCACCCTGGGCATC
TTCACCTTGTCGACCTCAAAACATAGACTTCCATGTTCCATCTGAGTACTTAACAAACAGTCACATTAGGGATAAGCTGA
CTGCAATAAAACTTGGTTGATATGGAGAAGATCTTCTCTTCTATCTGTATTACATGAATGGAGAAGATGCACTACAACTT
TTAGCTGCAGTAAAGCTTTTTAACCGTGATTGGAGATACCACAAAGAAGAACGAGTATGGATTACCAGGGCACTGGGCAT
GGAGCCAACAATGAAAACCAATACATATGAGAGGGGAACATATTACTTCTTTGACTGTCTTAACGGGAGGAAAGTAGCTA
AG

Alignment

ORF - retro_tsyr_1927 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.52 %
• Parental protein coverage: 59.27 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SENVTGLDLSDFPALADRNRREGSGNPTPLINPLAGRAPYVGMVTKPANEQSQDFSIHNEDFPALPGSSY
          SENVTGLDLSDFPALA.RNR.EGSGNPTPLINPL.GRA.YVGMVTKPANEQSQ.FSI..EDFPALPGSSY
Retrocopy SENVTGLDLSDFPALAGRNRGEGSGNPTPLINPLTGRALYVGMVTKPANEQSQVFSIPSEDFPALPGSSY

Parental  KDPTSSNDDSKSNLNTSGKTASSTDGPKFPGDKSSTTQNNNQQKKGIQVLPDGRVTNIPQGMVTDQFGMI
          KDPTSSNDDSKSNLNT.GKT.SSTDGPKFPGDKSSTTQNNNQQKKGIQVLPDGRVTNIPQG.VTDQFGMI
Retrocopy KDPTSSNDDSKSNLNTCGKTTSSTDGPKFPGDKSSTTQNNNQQKKGIQVLPDGRVTNIPQGIVTDQFGMI

Parental  GLLTFIRAAETDPGMVHLALGSDLTTLGLNLNSPENLYPKFASPWASSPCRPQDIDFHVPSEYLTNIHIR
          .LLTFI.AAETDPGMVHLALGSDLTTLGLNLNSPENLYPKF.SPWASSPCRPQ.IDFHVPSEYLTN.HIR
Retrocopy DLLTFIGAAETDPGMVHLALGSDLTTLGLNLNSPENLYPKFTSPWASSPCRPQNIDFHVPSEYLTNSHIR

Parental  DKLAAIKLGRYGEDLLFYLYYMNGGDVLQLLAAVELFNRDWRYHKEERVWITRAPGMEPTMKTNTYERGT
          DKL.AIKLG.YGEDLLFYLYYMNG.D.LQLLAAV.LFNRDWRYHKEERVWITRA.GMEPTMKTNTYERGT
Retrocopy DKLTAIKLG*YGEDLLFYLYYMNGEDALQLLAAVKLFNRDWRYHKEERVWITRALGMEPTMKTNTYERGT

Parental  YYFFDCLNWRKVAK
          YYFFDCLN.RKVAK
Retrocopy YYFFDCLNGRKVAK

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_1927 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Sorex araneus	ENSSARG00000001038	1 retrocopy	retro_sara_751,
Tarsius syrichta	ENSTSYG00000012927	2 retrocopies	retro_tsyr_1927 , retro_tsyr_740,