RetrogeneDB ID: retro_tbel_2103

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_996:10474..10829(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DSN1
• Ensembl ID: ENSTBEG00000002396
• Aliases: None
• Description: DSN1, MIS12 kinetochore complex component [Source:HGNC Symbol;Acc:16165]

Sequence

>retro_tbel_2103
GCTTCTCTTTCTGAAGAATTGATACACTTTACGGACAGACTGGAAAGTGATAGAACACTACAAAATGTTTTAAAGATTCA
AAAGGAAAAGCAATGGCTTTGTCTCTGGAGACATCAGCAGCTGAGATGAAGGAATACGTAACAAGGTTTTCTTTAGAATG
TCAGAGTTAGGATCAGCTCTTAGTGTGCTACCAGAAGGAGGTTGAAGAGGTACATCCGGAGGATCGACAGAAACCAAAGT
TACTAAAGTTGAAGTGGAACCCAAGACATGTCTTGGATCTTCTCAGAGTGAAGTTCTTGATACAGTGCCTGACTACCAGA
AAATATTGCAGAACCAGGGCAGTCTTTGATTGTGT

Alignment

ORF - retro_tbel_2103 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.07 %
• Parental protein coverage: 50.43 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SSLSEELKHFTDRLESDGTLQ-KCFEDSKGKAIDLSLEASVAEMKEYITKFSLERQTWDQLLLRYQKEAE
          .SLSEEL.HFTDRLESD.TLQ.KCF.DSKGKA..LSLE.S.AEMKEY.T.FSLE.Q..DQLL..YQKE.E
Retrocopy ASLSEELIHFTDRLESDRTLQ<KCFKDSKGKAMALSLETSAAEMKEYVTRFSLECQS*DQLLVCYQKEVE

Parental  EI-SGGST-ETKVIEVKVEPTTYLGSSQSEVLDTVPDYQKMLQNQSRVFDC
          E....G...ETKV..V.VEP.T.LGSSQSEVLDTVPDYQK.LQNQ.....C
Retrocopy EV<TSGGSTETKVTKVEVEPKTCLGSSQSEVLDTVPDYQKILQNQGSL*LC

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq

Tupaia belangeri was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tbel_2103 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2103 was not experimentally validated.

Homology

Retrocopy orthology:

Tupaia belangeri 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000002396	1 retrocopy	retro_tbel_2103 ,
Vicugna pacos	ENSVPAG00000003601	1 retrocopy	retro_vpac_372,