RetrogeneDB ID: retro_tbel_2706

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_117115:71139..71472(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: STMN4
• Ensembl ID: ENSTBEG00000007290
• Aliases: None
• Description: stathmin-like 4 [Source:HGNC Symbol;Acc:16078]

Sequence

>retro_tbel_2706
GTTGTAGCGTTCACCCTGTTCTCCTCAAATAAGAAGGATCTTTTGCTGGAGGAAATTCAGAAGAAATTAGAAGCTACAGA
GGAAAGAAGCAAGTCCCATAAAGCTGAGGTTCTGAAGCAGCTAGCTGAGAAACTGGAGTATGAGAAAGAAGTGCTTCAGA
AAGCCATGGAGGAGAGCAACTTCAGTTAAGAGGGTGTAACAGAAGTTGACCCATAAAATGGAAACTAACAAGAGAACCGC
GAGGCACAGGTGGCTGCGAAACTGGAACATTTGCGAGAGAAGGGTGAGTACATTGAGGAAGTGTGGAAGAAGAAAGAATC
CAAAGATCCTGCT

Alignment

ORF - retro_tbel_2706 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.14 %
• Parental protein coverage: 53.08 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VPEFNASLPRRRDPSLEEIQKKLEAAEERRKYQEAELLKHLAEKREHEREVIQKAIEENNNF-IKMAKEK
          V..F........D..LEEIQKKLEA.EER.K...AE.LK.LAEK.E.E.EV.QKA.EE..NF..K....K
Retrocopy VVAFTLFSSNKKDLLLEEIQKKLEATEERSKSHKAEVLKQLAEKLEYEKEVLQKAMEES-NF>VKRV*QK

Parental  LAQKMESNK-ENREAHLAAMLERLQEKDKHAEEVRKNKELKEEA
          L..KME.NK.ENREA..AA.LE.L.EK....EEV.K.KE.K..A
Retrocopy LTHKMETNK<ENREAQVAAKLEHLREKGEYIEEVWKKKESKDPA

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_2706 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2706 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000003756	1 retrocopy	retro_dnov_935,
Macropus eugenii	ENSMEUG00000006013	1 retrocopy	retro_meug_1456,
Tupaia belangeri	ENSTBEG00000007290	1 retrocopy	retro_tbel_2706 ,