RetrogeneDB ID: retro_tsyr_217

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_5524:31523..32257(-)
• Located in intron of: ENSTSYG00000011177

Retrocopy information

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

Parental gene information

• Parental gene symbol: C1orf27
• Ensembl ID: ENSTSYG00000011439
• Aliases: None
• Description: chromosome 1 open reading frame 27 [Source:HGNC Symbol;Acc:24299]

Sequence

>retro_tsyr_217
AATGGACTTATACGCTGGGCCAAGCAAATAAAAAACGTTGTTTATTTGATTAATGGACAAGTTAAAGATGAAGATTGTGA
CCTATTAGAAGGACAGAAAAAATCTAGAGGAAATACTCAAACAACTAGTCAGTCTTTTGATGTCAAAGTGCTAACGCAGT
TGCTCCTGAATTTAGACCACAGATCCACAGCTACGGTCCAGGTCTGTAGTGGTTCTGTAAATCTGAAGGGTGCTATGAAA
CGCAGAGCTTATATCCACAGCAATAAGCCCAAGGTTAAAAATGCCATGCAGGCAGTAAAGACAGATATATTGAACACAGT
TGCTGATCGTTGTGAAATACTACTTGAGGATCTATTTTGAATGAAATTCCAGAAAAAAAAGATTCTGCAAAAAAGTCCCA
TATCCTTCCTCACCAAGTTTTTGTCCCCATTCCTGGATCCACTGTAATGTTATGTGGTTATAAATTTGGTGATGAGTCAG
CAGAAGAAATCCGAGACCATTTTATAGAGATGTTCGATCATATGATTCAAATAGAAGATTTGGAAATTGCAGAGGAAATA
AACACAGCCTATATGAGTTCCTCTACCAATAGTCAAACTCCATTGGACAACATAGATGATGAACAACCAATTAAAACTTC
AATAGTATTGAAAATGCAGCAAAACATAGGTATGATTGCAGCATTTGCAGTTGCATTGCTTGCTGTAGGTATCCCCTTTC
ATTACTTCAGTGAT

Alignment

ORF - retro_tsyr_217 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.34 %
• Parental protein coverage: 66.13 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NGLIRWAKQIENGMYLINGQVKDEDCDLLEGQKKSRGNTQATSHSFDVRVLTQLLLNSDHRSTAMVQVCS
          NGLIRWAKQI.N..YLINGQVKDEDCDLLEGQKKSRGNTQ.TS.SFDV.VLTQLLLN.DHRSTA.VQVCS
Retrocopy NGLIRWAKQIKNVVYLINGQVKDEDCDLLEGQKKSRGNTQTTSQSFDVKVLTQLLLNLDHRSTATVQVCS

Parental  GSVNLKGAVKCRAYIHSNKPKVKDAVQAVKRDILNTVADRCEILFEDL-LLNEMPEKKDSTKEFHILPHR
          GSVNLKGA.K.RAYIHSNKPKVK.A.QAVK.DILNTVADRCEIL.EDL..LNE.P.........HILPH.
Retrocopy GSVNLKGAMKRRAYIHSNKPKVKNAMQAVKTDILNTVADRCEILLEDL<ILNEIPXXXXXXXXSHILPHQ

Parental  VFVPIPGSTVMLCDYKFGDESAEEIRDHFIEMFDHMIQIEDLEIAEEINTAYVSSSINSQSPLDDIDDEQ
          VFVPIPGSTVMLC.YKFGDESAEEIRDHFIEMFDHMIQIEDLEIAEEINTAY.SSS.NSQ.PLD.IDDEQ
Retrocopy VFVPIPGSTVMLCGYKFGDESAEEIRDHFIEMFDHMIQIEDLEIAEEINTAYMSSSTNSQTPLDNIDDEQ

Parental  PKQPIKTTIVLKMQQNIGTIAAFAVALLAAGISFHYFSD
          P...IKT.IVLKMQQNIG.IAAFAVALLA.GI.FHYFSD
Retrocopy P---IKTSIVLKMQQNIGMIAAFAVALLAVGIPFHYFSD

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_217 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
Ictidomys tridecemlineatus	ENSSTOG00000023665	1 retrocopy	retro_itri_975,
Tarsius syrichta	ENSTSYG00000011439	2 retrocopies	retro_tsyr_1023, retro_tsyr_217 ,