RetrogeneDB ID: retro_tsyr_793

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_201854:1008..1332(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GSTM4
• Ensembl ID: ENSTSYG00000007276
• Aliases: None
• Description: glutathione S-transferase mu 4 [Source:HGNC Symbol;Acc:4636]

Sequence

>retro_tsyr_793
CTGGCCAGAGTTTGCTACAGTCCTGATTTTGAGAAACTGAAGCCAGAGTACCTGGAGGGCCTCCCTGACATGATGAGGCT
CTTCTCACAGTTCCTGGGGAAGCAGCCATGGTTTGCAGGGGACAAGATCACCTTTGTGTATTTTCTCGCTTACGATATCC
TTGACCTGCACCGTATATTTGAGCCGAAGTGCTTAGAGGCATTCCCAAACCTGAAGGACTTTGTGTCCCGATTTGAGGGT
TTAAAGTAGATCTTTGCCTACATGAAGTCCAGTCATTTCCTCCCAATGCCTCTGTACACAAAGGTGGCCATCTGGGGCAA
CAAA

Alignment

ORF - retro_tsyr_793 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.04 %
• Parental protein coverage: 60.34 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LAIVCYLPDFXXXKPEYLEGLPDMMRLFSQFLGKRPWFAGDKITFVDFLAYDILDLHRIFEPKCLDAFPN
          LA.VCY.PDF...KPEYLEGLPDMMRLFSQFLGK.PWFAGDKITFV.FLAYDILDLHRIFEPKCL.AFPN
Retrocopy LARVCYSPDFEKLKPEYLEGLPDMMRLFSQFLGKQPWFAGDKITFVYFLAYDILDLHRIFEPKCLEAFPN

Parental  LKDFVSRFEGLKKISAYMKSSCFLPTPLYTKMAIWGHK
          LKDFVSRFEGLK.I.AYMKSS.FLP.PLYTK.AIWG.K
Retrocopy LKDFVSRFEGLK*IFAYMKSSHFLPMPLYTKVAIWGNK

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_793 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 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000004970	1 retrocopy	retro_amel_1548,
Bos taurus	ENSBTAG00000016472	1 retrocopy	retro_btau_1181,
Equus caballus	ENSECAG00000024971	1 retrocopy	retro_ecab_1058,
Macaca mulatta	ENSMMUG00000019630	2 retrocopies	retro_mmul_1432, retro_mmul_1806,
Mustela putorius furo	ENSMPUG00000003658	1 retrocopy	retro_mputfur_758,
Mus musculus	ENSMUSG00000027890	1 retrocopy	retro_mmus_204,
Pteropus vampyrus	ENSPVAG00000009559	1 retrocopy	retro_pvam_1047,
Tarsius syrichta	ENSTSYG00000006736	1 retrocopy	retro_tsyr_145,
Tarsius syrichta	ENSTSYG00000007276	1 retrocopy	retro_tsyr_793 ,