RetrogeneDB ID: retro_tsyr_1561

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_490551:268..657(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WASF3
• Ensembl ID: ENSTSYG00000005184
• Aliases: None
• Description: WAS protein family, member 3 [Source:HGNC Symbol;Acc:12734]

Sequence

>retro_tsyr_1561
TCAGAAGTTCAAGACCAGCAGGTGGTATCAAAGAGTAGCATTCCTAATCCTGCTGCTCACATTTAGCCAGTGATGGATCA
CCTCCTCTGAATGCCCTGACACCACATGGTAATGACAAGGATGAGATGAAGTTCTATGCTGATCTTTCCTATTTCTTTGA
CCCTTGGAAAAACAAACACTACAGGACACAGAAGACAAAAGGAAAGAGAAAAGACATCAACAGGAACAAAAGCATATAGA
TGGCATCACCTGCAAGATTAAAGGGATTTAATACAGACAGAAATAGATGCCAGGAATGGAATGTGATGTCATATGACAAA
GAACTTAGACCTGACAACAAAGTGTCTCAGAGTAGACTATGGAGCGCCTCCAAGGGATCCCTGTTCCCA

Alignment

ORF - retro_tsyr_1561 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.97 %
• Parental protein coverage: 50.57 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  STVQDQQVVSKNSIPNPVADIYNQSD-KPPPLNILTPYRDDKKDGLKFYTDPSYFFDLWKEK-MLQDTED
          S.VQDQQVVSK.SIPNP.A.I....D..PP.LN.LTP...D.KD..KFY.D.SYFFD.WK.K..LQDTED
Retrocopy SEVQDQQVVSKSSIPNPAAHI*PVMD<SPP-LNALTPHGND-KDEMKFYADLSYFFDPWKNK<TLQDTED

Parental  KRKEKRRQKEQKRIDGTTREVKKV-RKARNRRQEWNMMAYDKELRPDNRLSQSVYHGASSEGSLSP
          KRKEKR.Q.EQK.IDG.T...K......RNR.QEWN.M.YDKELRPDN..SQS....A.S.GSL.P
Retrocopy KRKEKRHQQEQKHIDGITCKIKGI>NTDRNRCQEWNVMSYDKELRPDNKVSQSRLWSA-SKGSLFP

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_1561 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000132970	1 retrocopy	retro_hsap_3574,
Gorilla gorilla	ENSGGOG00000012518	1 retrocopy	retro_ggor_2411,
Tarsius syrichta	ENSTSYG00000005184	3 retrocopies	retro_tsyr_1561 , retro_tsyr_366, retro_tsyr_407,