RetrogeneDB ID: retro_tsyr_1233

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_35816:8132..8606(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LGALS3
• Ensembl ID: ENSTSYG00000009020
• Aliases: None
• Description: lectin, galactoside-binding, soluble, 3 [Source:HGNC Symbol;Acc:6563]

Sequence

>retro_tsyr_1233
CAACCCGGCGGGCCTGGGGATTACCCGCCTCCCGCAAAACCAAGTGCTCCTGGAGCCTACCCTGCTGCTGGCCTCTTTGG
TGTTCTTGCTGGGCTACTGACTATACCCTACCAGTTGCCTTGGCCTGCGGGAGCCATGCCTCGCATGCTGATCACCATCC
TGGGCAAGGTGAAACCCAACGCAAACCGAATTGCCTTAGATTTCAAGAAGGGGGATGATGTTGCCTTCCACTTTAACCCG
CGCTTCAAGGAGGGCAACCAGATAGTCATTGTTTGCAATACCAAGGTGCACGGTGCCAGGGGAAGGGAAGAAAGACACGC
GCAATTTCCATTCAAGAGTGGCAAATCATTCAAGATACAAGTTCTGGTGGAGTCTGACCACTTCAAGGTTGCATTCAATT
ATGCTCACTTGTTGCAGTACAATCATTGAATGAAAAATCAAAACGAAATCAGCAAACTGGGAATTTCTGGTGAC

Alignment

ORF - retro_tsyr_1233 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.44 %
• Parental protein coverage: 64.49 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QPGGPGAYPPPAQPSAPGAYPAAGPFGVPAGPLTVPYELPLPAGVMPRMLITILGTVKPNANRIALDFKK
          QPGGPG.YPPPA.PSAPGAYPAAG.FGV.AG.LT.PY.LP.PAG.MPRMLITILG.VKPNANRIALDFKK
Retrocopy QPGGPGDYPPPAKPSAPGAYPAAGLFGVLAGLLTIPYQLPWPAGAMPRMLITILGKVKPNANRIALDFKK

Parental  GNDVAFHFNPRFKEDNQRVIVCNTKVHDAWGREERHAQFPFKSGQPFKIQILVESDHFKVAVNDAHLLQY
          G.DVAFHFNPRFKE.NQ.VIVCNTKVH.A.GREERHAQFPFKSG..FKIQ.LVESDHFKVA.N.AHLLQY
Retrocopy GDDVAFHFNPRFKEGNQIVIVCNTKVHGARGREERHAQFPFKSGKSFKIQVLVESDHFKVAFNYAHLLQY

Parental  NHRMKNLNEITKLGISGD
          NH.MKN.NEI.KLGISGD
Retrocopy NH*MKNQNEISKLGISGD

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_1233 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 4 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000015013	1 retrocopy	retro_cfam_2018,
Mustela putorius furo	ENSMPUG00000005725	2 retrocopies	retro_mputfur_115, retro_mputfur_535,
Pteropus vampyrus	ENSPVAG00000016067	1 retrocopy	retro_pvam_103,
Tarsius syrichta	ENSTSYG00000009020	4 retrocopies	retro_tsyr_1233 , retro_tsyr_1390, retro_tsyr_1784, retro_tsyr_625,