RetrogeneDB ID: retro_tsyr_1201

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_34487:5195..5741(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IFNGR2
• Ensembl ID: ENSTSYG00000008744
• Aliases: None
• Description: interferon gamma receptor 2 (interferon gamma transducer 1) [Source:HGNC Symbol;Acc:5440]

Sequence

>retro_tsyr_1201
CTTTCCCGGCTGCCAGCTCCTTAGCACACGAAGATTCGCCTGTACAATGCCAAGCAGGTTTTGAGTTGGGAACCGGTGGT
TCTGAGCAATGACACAAGACCAATGTTCTACCAAGTGCAGTTTAAATACACCGGTAGTAAGTGGTTAAATGTGGATGTTG
CGTCTGTAGGAGTGAACTGTAGGCGGATCACGGCAACCGAGTGTGACTTCACTGCGGCTGGCCTCTCCAAAGGCTTCCAG
ATGGATTTCAAGGTCACGCTTCGCCTTCGAGCTAAGCTGGGAAAGCTCCATTCTGCCTGGGTGACGATGGCTTGGTTTCA
ACACTATCTGAATGTCACCATTGGGCCTCCAAGAAACGCCTGGGTGACCCCAGGAAAAGGCTCCCTTATCATCAGGTTCT
CCTCCCCCTTTGACATCGATACCTCTGCGGCCACCTTTCAATACTATGTCCATGACCGGGAAAAAGCAGGTTTCTAACAG
GTTAAAGGCCCTTTCGAGGGCAACTCTATTGTGTTGGGTGATTTAAAATTCTTCCGAGGGTACTGT

Alignment

ORF - retro_tsyr_1201 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.57 %
• Parental protein coverage: 58.25 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LSQLPAPQHPEIRLYNTEQVLSWEPVVLSNDTRPVVYQVQFKYIDGEWLNVE--SVGVNCTQVTATECDF
          LS.LPAP.H..IRLYN..QVLSWEPVVLSNDTRP..YQVQFKY....WLNV...SVGVNC...TATECDF
Retrocopy LSRLPAP*HTKIRLYNAKQVLSWEPVVLSNDTRPMFYQVQFKYTGSKWLNVDVASVGVNCRRITATECDF

Parental  TAAGCSKGFQVDFKVTLRLRAKLGKLHSAWGTMPWFQHYLNGAIGPPRNIWVTPGEVSLIIRFSSPFDID
          TAAG.SKGFQ.DFKVTLRLRAKLGKLHSAW.TM.WFQHYLN..IGPPRN.WVTPG..SLIIRFSSPFDID
Retrocopy TAAGLSKGFQMDFKVTLRLRAKLGKLHSAWVTMAWFQHYLNVTIGPPRNAWVTPGKGSLIIRFSSPFDID

Parental  TSAAPFPYYVHYQEKAGFQQIKGPFQSNFIVLDDLKPFREYC
          TSAA.F.YYVH..EKAGF.Q.KGPF..N.IVL.DLK.FR.YC
Retrocopy TSAATFQYYVHDREKAGF*QVKGPFEGNSIVLGDLKFFRGYC

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_1201 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000035211	1 retrocopy	retro_cjac_1142,
Dasypus novemcinctus	ENSDNOG00000000695	1 retrocopy	retro_dnov_1882,
Tarsius syrichta	ENSTSYG00000008744	1 retrocopy	retro_tsyr_1201 ,