RetrogeneDB ID: retro_tsyr_1784

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_585524:207..653(+)
• 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_1784
CCTGCCACCGGCCCCTTTGGCGCCCCCACTGGGTCACCAACTGTGCCTTACCACCTGCCTCTGCCAGTAGGAGTCAGGCC
TCACATGCTGACTACAGTCCCTGCCATGGTGAAGCCCAAAGCAAACCAAATTGCCTTAGATTTCAAGAGAGGGAATGACG
CTACCTCCCACTTTAACCCATGCTTCAGTGAGGACAACAGGAGAGTCATTGCTTGCAATAGAAGGTGGATACCAACTGGG
GAAAGAAAGAAAGACATGCGACTTCCTCATTGGAAAGTGGTAAACCATTCAAAATACAAGCTCTGATTGAATCTGACCAC
TTCAAGGCTGCAGCCAATGATGCTCACTTGTGGCAGGGCAATCATCAGATGAAAAATCTCAAGGAAATCAACAGACTGGG
AATTGCTGACGACATAGACCTCTTCAGTGCTTCACACACTATGATA

Alignment

ORF - retro_tsyr_1784 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66. %
• Parental protein coverage: 60.82 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PAAGPFGVPAGPLTVPYELPLPAGVMPRMLITILGTVKPNANRIALDFKKGNDVAFHFNPRFKEDNQRVI
          PA.GPFG.P.G..TVPY.LPLP.GV.P.ML.T....VKP.AN.IALDFK.GND...HFNP.F.EDN.RVI
Retrocopy PATGPFGAPTGSPTVPYHLPLPVGVRPHMLTTVPAMVKPKANQIALDFKRGNDATSHFNPCFSEDNRRVI

Parental  VCNT-KVHDAWGREERHAQFPFKSGQPFKIQILVESDHFKVAVNDAHLLQYNHRMKNLNEITKLGISGDI
          .CN..KV...WG..ERHA.....SG.PFKIQ.L.ESDHFK.A.NDAHL.Q.NH.MKNL.EI..LGI..DI
Retrocopy ACNR<KVDTNWGKKERHATSSLESGKPFKIQALIESDHFKAAANDAHLWQGNHQMKNLKEINRLGIADDI

Parental  DLTSASHAMI
          DL.SASH.MI
Retrocopy DLFSASHTMI

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_1784 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,