RetrogeneDB ID: retro_tbel_911

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_329:223549..223972(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TXNL1
• Ensembl ID: ENSTBEG00000017328
• Aliases: None
• Description: thioredoxin-like 1 [Source:HGNC Symbol;Acc:12436]

Sequence

>retro_tbel_911
CTTAATGAAAGCAATGAAAATGGATTTGACAACTGTTTGCGAAAAGACCTGAGCTTCTTGGAATCTGACTGCGATAAACA
GCTACTTATTACTGTGGCATTCAATCAACCTGTTAAGCTTTATTCCATGAAATTTCAAGGACCAGATAATGGCCAGGGTC
CTAAATATGTAAAAATTTTTATCAACCCACGCCGATCAATCAATTTCAAAGAGGCAGAAAGAAGTGAACCAATTCAAGGT
CTGGAACTGACAGAGGACATTAAAGAAGATGCCATCATTCCACTTCCTTATGTGAAGTTTCAGAATGTTAACAGTGTAAC
TATATTTGTTCAGTCCAATCAAGGTGAAGAAGAAAGGACAAGAATTCCGTATCTTAATTTTATTGGTACTCTAGTCCAGG
CAACAAATATGAATGACTTCAAA

Alignment

ORF - retro_tbel_911 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.51 %
• Parental protein coverage: 57.49 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LNESDENGFDNCLRKDLSFLESDCDEQLLITXXXNQPVKLYSMKFQGPYNGQGPKYVKIFINLPRSMDFE
          LNES.ENGFDNCLRKDLSFLESDCD.QLLIT...NQPVKLYSMKFQGP.NGQGPKYVKIFIN..RS..F.
Retrocopy LNESNENGFDNCLRKDLSFLESDCDKQLLITVAFNQPVKLYSMKFQGPDNGQGPKYVKIFINPRRSINFK

Parental  EAERSEPTQALELTEDDIKEDGIVPLRYVKFQNVNSVTIFVQSNQGEEETTRISYFTFIGTPVQATNMND
          EAERSEP.Q.LELTE.DIKED.I.PL.YVKFQNVNSVTIFVQSNQGEEE.TRI.Y..FIGT.VQATNMND
Retrocopy EAERSEPIQGLELTE-DIKEDAIIPLPYVKFQNVNSVTIFVQSNQGEEERTRIPYLNFIGTLVQATNMND

Parental  FK
          FK
Retrocopy FK

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_911 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_911 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 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000000137	1 retrocopy	retro_cfam_875,
Choloepus hoffmanni	ENSCHOG00000010262	1 retrocopy	retro_chof_1723,
Ictidomys tridecemlineatus	ENSSTOG00000000075	2 retrocopies	retro_itri_302, retro_itri_414,
Tupaia belangeri	ENSTBEG00000011193	2 retrocopies	retro_tbel_1293, retro_tbel_3405,
Tupaia belangeri	ENSTBEG00000017328	2 retrocopies	retro_tbel_1981, retro_tbel_911 ,
Tursiops truncatus	ENSTTRG00000001161	1 retrocopy	retro_ttru_1154,