RetrogeneDB ID: retro_tsyr_1023

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_278331:312..1057(-)
• Located in intron of: None

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_1023
AATGGACTTATACGCTGGGCCAAGCAAATAGAAAATGGTATTTATTTGATTAATGGACAATTTAAAGATGAAGATTGTGA
CCTATTAGAAGGACAGAAAAAATCTCAAGGAAATACTCAAGCAACTAGTCATTCTTTTGATGTCAGAGTGCTAACTCAGT
TGCTCCTGAATTCAGACCACAGATCGACAGCTATGGTCCAGGTCTGCAATGGTTCTGTAAATCTGAAGGGTGCTGTGAAA
TGCAGATCTTATATCCACAGCAATAAGCCCAAGGTTAAAGATGCCGTGCAGGCAGTAAAGAGAGATATATTGAACACAGT
TGCTGATCATTGTGAAATACTATTATGAGGATCTACTTTTGAATGAAATGCCAGAAAAAGAAGATTCTACAAAAGAGTTC
CATATCCTTCCTCACCGAGTTTTTGTACCCATTCCTGGATTCACTGTAATGTTATGTGATTATAAATTTGGTGATGAGTC
AGCAGAAGAAATCCGAGACCATTTTCTAGAGATGTTCGATCATATGATTCAAATAGAAGATTTGGAAATTGCAGAGGAAA
TAAACAGAGCCTATATGAGTTCCTCTATCAATAGTCAATCTCCATTGGACAACATCGATGATGAACAACCAAAACAACCA
ATTAAAACTACAATAGTATTGAAAATGCAGCAAAACATAGGTATGATTGCAGCACTTGCAGTTGCATTGCTTGCTGCAGG
TATTTCCTTTTATTACTTCAGTGAT

Alignment

ORF - retro_tsyr_1023 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.17 %
• Parental protein coverage: 66.13 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NGLIRWAKQIENGMYLINGQVKDEDCDLLEGQKKSRGNTQATSHSFDVRVLTQLLLNSDHRSTAMVQVCS
          NGLIRWAKQIENG.YLINGQ.KDEDCDLLEGQKKS.GNTQATSHSFDVRVLTQLLLNSDHRSTAMVQVC.
Retrocopy NGLIRWAKQIENGIYLINGQFKDEDCDLLEGQKKSQGNTQATSHSFDVRVLTQLLLNSDHRSTAMVQVCN

Parental  GSVNLKGAVKCRAYIHSNKPKVKDAVQAVKRDILNTVADRCEIL-FEDLLLNEMPEKKDSTKEFHILPHR
          GSVNLKGAVKCR.YIHSNKPKVKDAVQAVKRDILNTVAD.CEIL..EDLLLNEMPEK.DSTKEFHILPHR
Retrocopy GSVNLKGAVKCRSYIHSNKPKVKDAVQAVKRDILNTVADHCEIL>YEDLLLNEMPEKEDSTKEFHILPHR

Parental  VFVPIPGSTVMLCDYKFGDESAEEIRDHFIEMFDHMIQIEDLEIAEEINTAYVSSSINSQSPLDDIDDEQ
          VFVPIPG.TVMLCDYKFGDESAEEIRDHF.EMFDHMIQIEDLEIAEEIN.AY.SSSINSQSPLD.IDDEQ
Retrocopy VFVPIPGFTVMLCDYKFGDESAEEIRDHFLEMFDHMIQIEDLEIAEEINRAYMSSSINSQSPLDNIDDEQ

Parental  PKQPIKTTIVLKMQQNIGTIAAFAVALLAAGISFHYFSD
          PKQPIKTTIVLKMQQNIG.IAA.AVALLAAGISF.YFSD
Retrocopy PKQPIKTTIVLKMQQNIGMIAALAVALLAAGISFYYFSD

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_1023 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,