RetrogeneDB ID: retro_tbel_2089

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_940:183198..183806(+)
• Located in intron of: ENSTBEG00000009947

Retrocopy information

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

Parental gene information

• Parental gene symbol: BSPRY
• Ensembl ID: ENSTBEG00000003560
• Aliases: None
• Description: B-box and SPRY domain containing [Source:HGNC Symbol;Acc:18232]

Sequence

>retro_tbel_2089
CATGGCCAGGCTCTGAGCTGGTTCTGCGGCTCTGAACAACGGCCAAGGTGCACCGCCTGCACGGAGCAAGATGGCCACTG
CCGGGGGCACCACATCTGCCAAGCAGAGGAGTGCGCCGAGGAGCTTTGGAACAAGATTGTGGACCAGTGTGAGAGGCTGC
AGCTACAGAGTGCTGGCATCACCAAGTATGTAGCTGAGGTCCTGCCAGGGAAGAACCAGAGAGCAGTGGGCATGGCTAGT
GCAGTGAGGGAACTGGTGATCCAGCAGTTGAGTCTGGTGAGGAGTCTGTGTGAGAGCGAGGAACAGCGGTTACTGGAACA
GGTGCATGGAGAAGAGGAGCAGGCCCACCAGAGCAACTTGACACAGCAGGTCCACTGGGCCGAGGCACTGAAGAAGCTTG
ACAACATCCACACCAGCCTGGTGGGCATGCTCACCTATCTGGATGACCTCCAGCTAATTCAGAAGGAACAGGAGATTTTC
GAGAGGTCCTAGGAAGCAGAGGGCATTTTGGATCCTCAGGAGTCAGAAAAGTTAAACTTTAATGAGAAGTGCACTCATAG
TCCCCTACTGACCCGACTCTGGCAACAGCCGTTCTCGGATCCCTCTCA

Alignment

ORF - retro_tbel_2089 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.73 %
• Parental protein coverage: 54.01 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HVQALCWFCGS-RRPVCAACAVQDGRCRGHRIRRAEECAEELRNKIVDQCERLQLQSAGITKYVAEVLPG
          H.QAL.WFCGS..RP.C.AC..QDG.CRGH.I..AEECAEEL.NKIVDQCERLQLQSAGITKYVAEVLPG
Retrocopy HGQALSWFCGSEQRPRCTACTEQDGHCRGHHICQAEECAEELWNKIVDQCERLQLQSAGITKYVAEVLPG

Parental  KNQRAVGMASAARELVIQRLGLVRSLCESEEQRLLEQVHGEEERAHQSNLTQQVHWAEALKKLDSIRTSL
          KNQRAVGMASA.RELVIQ.L.LVRSLCESEEQRLLEQVHGEEE.AHQSNLTQQVHWAEALKKLD.I.TSL
Retrocopy KNQRAVGMASAVRELVIQQLSLVRSLCESEEQRLLEQVHGEEEQAHQSNLTQQVHWAEALKKLDNIHTSL

Parental  VGMLTHLDDLQLIQKEQEIFERSEEAEGILDPQESEKLNFNEKCTQSPLLTRLW-ATAVLGSLS
          VGMLT.LDDLQLIQKEQEIFERS.EAEGILDPQESEKLNFNEKCT.SPLLTRLW.ATAVLGSLS
Retrocopy VGMLTYLDDLQLIQKEQEIFERS*EAEGILDPQESEKLNFNEKCTHSPLLTRLW<ATAVLGSLS

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_2089 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2089 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Monodelphis domestica	ENSMODG00000004402	1 retrocopy	retro_mdom_1959,
Tupaia belangeri	ENSTBEG00000003560	1 retrocopy	retro_tbel_2089 ,