RetrogeneDB ID: retro_tsyr_335

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_887:163505..163871(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TEX12
• Ensembl ID: ENSTSYG00000006348
• Aliases: None
• Description: testis expressed 12 [Source:HGNC Symbol;Acc:11734]

Sequence

>retro_tsyr_335
GTGATGCCAAGTCATCCTGCAAAACCCAATTCTAGAAATTGCAAGAGACCAAGAGAAATGGAGGCCCAAGTGCAGATAAT
CCACAGCTACCCTTTCTTAGAAAATCAGATACAACCTTCTCTGAAAGTCCTTGACTATTTATAAAGACGAAACCTTAGAA
AAATACTTGAATGATATGAGCAAGGAAGTTAATCTGGTGTTGTCTACATATGTAAATATCTTAAGTATAGAGCACCAGTA
TAGGCATGTTACATTGATGAGACAGATGGACTCTTCAAAGAAGTCAATACTATTGAAAACTTTCTAATTAAAAAAAAAAT
AGAGCTCCTGAGACAGAAGTTTACAGTGATTGCAAACACAGTACAC

Alignment

ORF - retro_tsyr_335 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.84 %
• Parental protein coverage: 99.19 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MMASHLVKPDTRNCKRPRETEAQMP-DSPQLPSLGKSDSSFSEGSGLF-YKDEALEKDLNDISKEINLML
          .M.SH..KP..RNCKRPRE.EAQ...D.PQLP.L.KSD..FSE...LF.YKDE.LEK.LND.SKE.NL.L
Retrocopy VMPSHPAKPNSRNCKRPREMEAQVQ<DNPQLPFLRKSDTTFSESP*LF<YKDETLEKYLNDMSKEVNLVL

Parental  STYANILS-ERAAVDASYIDEIDGLFKEANTIENFLI-QKRELLRQRFTVIANTLH
          STY.NILS..RA.V.A.YIDE.DGLFKE.NTIENFLI....ELLRQ.FTVIANT.H
Retrocopy STYVNILS<YRAPV*ACYIDETDGLFKEVNTIENFLIXXXXELLRQKFTVIANTVH

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_335 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
Cavia porcellus	ENSCPOG00000009900	1 retrocopy	retro_cpor_1327,
Oryctolagus cuniculus	ENSOCUG00000002174	1 retrocopy	retro_ocun_359,
Tarsius syrichta	ENSTSYG00000006348	1 retrocopy	retro_tsyr_335 ,