RetrogeneDB ID: retro_tsyr_1657

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_533166:0..725(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GORASP2
• Ensembl ID: ENSTSYG00000014516
• Aliases: None
• Description: golgi reassembly stacking protein 2, 55kDa [Source:HGNC Symbol;Acc:17500]

Sequence

>retro_tsyr_1657
TGTGGCATTGGATATGGTTATTTGCACTGAATATCTACTTGCCCATTCGAAGAAGAAAACAAAAATTCTCTTCCAGGACA
AATGACTAGCATGTTTATTATGCCTCTTAAAGATGGGTTTACAGAGGTCCAACTGTAATGCACTGTCTTTGTCACCCCCA
GGAACTACAGGGATTGAAGAGAGTCTCTCTGTACTTTCTGTTAGCTCAACACCAGCTGTCAGTAATATTCTCAGCACAGG
TGTACCAACAGTACCATTATTGCCATCATAAGTAAACCAGTCCCTCACTCCTGTGCCACCAATGAAGCCAGCTACTATTT
TACCAGGTCTGTTGCCTTTATCAGCAGGACTACCTAACCTCCCCAGCCTCCTCACCCTCAACCTCCTCATACCACACATT
ATGCCAAGGATTGGCTTACTAAGAACTCATAAACCTGGGTTTGCTACCTCTTCCTGCCCTGCCCCCTGAAACTTTCCTGG
TGTTGCACCTTTCCTCTTCTCCCATGCCTTCCAAGTTCCTCCTTTCATTCCCATTGGTTCCAGAAGACTCTCCTGCAGCA
AGTTCAGGGAGGGTGCTGCCTTCCCTCCCATTCACTGGCAGCCCACCTTCGAACCCTGTTGCAACTATTGCAAAGGCACA
TGCTACCTCCTCACTCACTGCTGATGTGACACTCCAGCCCTCCCTTACCCCCCACCGCCACACAGCAAATGCTTCTGAGT
CACCT

Alignment

ORF - retro_tsyr_1657 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.3 %
• Parental protein coverage: 54.48 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  CGIGYGYLHRIPTRPFEEGKKISLPGQMTGTPITP-LKDGFTEVQLSSVNPPSLSPPGSTGIEQNLSGLS
          CGIGYGYLH.I.T.PFEE..K.SLPGQMT...I.P.LK.G....Q.S..N..SLSPPG.TGIE..LS.LS
Retrocopy CGIGYGYLH*ISTCPFEEENKNSLPGQMTSMFIMP>LKMG---LQRSNCNALSLSPPGTTGIEESLSVLS

Parental  ISSTPAVSNVLSTEVPTVPLLPAQVN--LKCMPPMNPSTTLPGLMPLPAGLPNLPSLPNLNLPAPHIMPG
          .SSTPAVSN.LST.VPTVPLLP..VN..L...PPM.P.T.LPGL.PL.AGLPNLPSL..LNL..PHIMP.
Retrocopy VSSTPAVSNILSTGVPTVPLLPS*VNQSLTPVPPMKPATILPGLLPLSAGLPNLPSLLTLNLLIPHIMPR

Parental  VGLP-ELVNPGLPPLPSLPPR-NLPGIAPLPMPSEFL--PSFP-LVPEGSPAANSGDLL-SLPPTGSPPS
          .GL..EL.N.GL.PLP.LPP..N.PG.AP......F...P..P.LVPE.SPAA.SG..L.SLP.TGSPPS
Retrocopy IGLL>ELINLGLLPLPALPPE<NFPGVAPFLFSHAFQVPPFIP>LVPEDSPAASSGRVLPSLPFTGSPPS

Parental  NPVTTTTKAEVAFSVTVDVTPQPKASATKDRISYSAPASEKP
          NPV.T..KA....S.T.DVT.QP..S.T..R....A.ASE.P
Retrocopy NPVATIAKAHATSSLTADVTLQP--SLTPHR--HTANASESP

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_1657 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000007263	1 retrocopy	retro_dnov_1915,
Mustela putorius furo	ENSMPUG00000000812	1 retrocopy	retro_mputfur_676,
Sorex araneus	ENSSARG00000007686	1 retrocopy	retro_sara_305,
Tarsius syrichta	ENSTSYG00000014516	1 retrocopy	retro_tsyr_1657 ,