RetrogeneDB ID: retro_tbel_4097

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_67038:687..1050(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ANKRD46
• Ensembl ID: ENSTBEG00000011202
• Aliases: None
• Description: ankyrin repeat domain 46 [Source:HGNC Symbol;Acc:27229]

Sequence

>retro_tbel_4097
ATACTATTCTTAGTTTCAAATGGACTCAAAATTAATACTTGCAATCATCAAGATTCTACTCCCTTAGTTCTGGCAAAGCA
CAGGGCAGTGAATAAAGATGTTGCCCCAATTGCTGGAATATTTGAAAGAGCAAGAAGTAAAAGGATTTAACAGAGGAACC
CACTCAAAACTATAGACTATGCAAAGAGCTGAGAGTGAACGTGCCATGGAAAGCCATTCTCTCCTCAATCCCAACCTACA
GCAAGGCAAAGGAGTACTTTCCAACTTTTGAACCCATGGTAGGAGTTTGTAGAGGATCTAGTTTTTTGGAGGGTGTTGTT
CTTGATCTTTGTTATTGCCTTGCTGTTGCTTGGGATTGCCTAC

Alignment

ORF - retro_tbel_4097 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.49 %
• Parental protein coverage: 78.57 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  IQFLVSNGLKIDICNHQGATPLVLAKRRGVNKDVI-RLLESLEEQEVKGFNRGTHSKLETMQTAESESAM
          I.FLVSNGLKI..CNHQ..TPLVLAK.R.VNKDV...LLE.L.EQEVKGFNRGTHSKL.TMQ.AESE.AM
Retrocopy ILFLVSNGLKINTCNHQDSTPLVLAKHRAVNKDVA>QLLEYLKEQEVKGFNRGTHSKL*TMQRAESERAM

Parental  ESHSLLNPNLQQGEGVLSSFRT-TWQEFVEDLGFWRVLLLIFVIALLSLGIAY
          ESHSLLNPNLQQG.GVLS.F.T..W.EFVEDL.FWRVL.LIFVIALL.LGIAY
Retrocopy ESHSLLNPNLQQGKGVLSNF*T<PW*EFVEDLVFWRVLFLIFVIALLLLGIAY

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_4097 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4097 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Ictidomys tridecemlineatus	ENSSTOG00000024280	2 retrocopies	retro_itri_1298, retro_itri_293,
Tupaia belangeri	ENSTBEG00000011202	1 retrocopy	retro_tbel_4097 ,