RetrogeneDB ID: retro_tbel_385

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_1916:71892..72354(-)
• Located in intron of: ENSTBEG00000001612

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM206A
• Ensembl ID: ENSTBEG00000004984
• Aliases: None
• Description: family with sequence similarity 206, member A [Source:HGNC Symbol;Acc:1364]

Sequence

>retro_tbel_385
GTCAAAGAAAAACCCTGTGAGGACCACTGTATACTACAGCACTCCAACAGAATATGTGTCATCACATTGGCAGAATCTCA
CCTAGTTCTTCAAAGTGGAAAAATAATTAAAAGCATTTCTTATCAGATCAGTACCAACTGTAGCAGGCTTCAGAACAAGG
TCTCTGGGAAATTTAAATGGGGGGCACAATTTCTAACAGAATTGGCACCTCTGTTTAAGATTTCCTGCTCAGATGGAGAA
GAATATACCATATCTAGCTGTGTTAGAGGACGGTTGATGGAAGTGAATGAAAATATTCTCCATAAGCCATCTCTTCTTCA
AGAAAGGCCCTCCACCAAAGGCTACATTGCAGTTGTGTTACCCAAATTTGAAGAAAGTAAAAGTATAACAGAAGGGTTAC
TGACACAAAAACAATATGAAGAAGTTGTGGCGAAATGCGTTAATGCCACCACGGCCACGTCA

Alignment

ORF - retro_tbel_385 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.81 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VKGKPCEDHCILQHSNRICVITLAESHPVLQSGKIIKSISYQISTNCSRLQNKVSGKFKRGAQFLTELAP
          VK.KPCEDHCILQHSNRICVITLAESH.VLQSGKIIKSISYQISTNCSRLQNKVSGKFK.GAQFLTELAP
Retrocopy VKEKPCEDHCILQHSNRICVITLAESHLVLQSGKIIKSISYQISTNCSRLQNKVSGKFKWGAQFLTELAP

Parental  LCKISCSDGEEYTISSCVRGRLMEVNENILHKPSILQEKPSTEGYIAVVLPKFEESKSITEGLLTQKQYE
          L.KISCSDGEEYTISSCVRGRLMEVNENILHKPS.LQE.PST.GYIAVVLPKFEESKSITEGLLTQKQYE
Retrocopy LFKISCSDGEEYTISSCVRGRLMEVNENILHKPSLLQERPSTKGYIAVVLPKFEESKSITEGLLTQKQYE

Parental  EVVAKRVNATTATS
          EVVAK.VNATTATS
Retrocopy EVVAKCVNATTATS

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_385 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_385 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000013637	1 retrocopy	retro_meug_1321,
Monodelphis domestica	ENSMODG00000012563	1 retrocopy	retro_mdom_1837,
Tupaia belangeri	ENSTBEG00000004984	2 retrocopies	retro_tbel_2689, retro_tbel_385 ,