RetrogeneDB ID: retro_tbel_502

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_2266:566604..566954(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SCIMP
• Ensembl ID: ENSTBEG00000010994
• Aliases: None
• Description: SLP adaptor and CSK interacting membrane protein [Source:HGNC Symbol;Acc:33504]

Sequence

>retro_tbel_502
GCTGTTGCTATGATGGTTGTCTCTGTGGGTCTGGCCTTTGTCATGTACCATGTCCATAGGGGCAGCTTCGACAAGGCAAG
AAGTGAGAAATCACCAAGCGCTTGAAACCAAAAGAAAGAGATGAAGAAAAGATGTCTGAGAATGTTCTCATCAATCAACA
GATCAAGTACCTGCTCTGCCACCCAGAGGTGTGCTTTTGCCACAAGGCTCCTCCCACAGGAAACCCTAAGTGAGCCACCA
GTCACATACTCACTGGTAAATAAGTTAGAAAGAAGAACATCACCTCCACCCCAAGCTACAAGGAGCCAGAAGATAACCGT
GGCGATGTTGAAATTCCTACAGACACAAAA

Alignment

ORF - retro_tbel_502 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.67 %
• Parental protein coverage: 82.27 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  AVTIIVVSVGLGLIMYCVCRW-QLRQGKKWKIVNSLKQNERDEEKMYENV-PDQSPDQVPPLPPRGVFLP
          AV...VVSVGL...MY.V.R..QLRQGKK..I...LK..ERDEEKM.ENV...QS.DQVP.LPPRGV.LP
Retrocopy AVAMMVVSVGLAFVMYHVHRG<QLRQGKK*EITKRLKPKERDEEKMSENV<SHQSTDQVPALPPRGVLLP

Parental  QVSS-PQETLSEPPVTYSLVNK-VRKKNIIS--SYIEPEDDYDDVEIPAGKK
          Q.SS.PQETLSEPPVTYSLVNK.VRKKNI.S..SY.EPED...DVEIP...K
Retrocopy QGSS<PQETLSEPPVTYSLVNK<VRKKNITSTPSYKEPEDNRGDVEIPTDTK

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_502 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_502 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000010994	1 retrocopy	retro_tbel_502 ,