RetrogeneDB ID: retro_tbel_3596

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_145661:36611..37126(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IL13RA2
• Ensembl ID: ENSTBEG00000004962
• Aliases: None
• Description: interleukin 13 receptor, alpha 2 [Source:HGNC Symbol;Acc:5975]

Sequence

>retro_tbel_3596
AAAACATTAGGTAGTGAAAGACGGAAGATCATCATTACTAAGAATCTATATTACAAAGATGGGTTTGATCTTAATAAGGG
CATTGAAGCAAGGATACATACAATTTTGCCAGGGCAATGCACAAATGGATTAGAAGTTCAAAGTTCATGGAAAGAAGCTA
CTTACTAGACATCACTACAAGAGAATCTGGAAACTAAAATTCAGTATATGGATTGTGTACATTACAACTGGCAATATTTA
CTTTGTTCTTGGAAAACTGGCATGGAAATAAATTCTGATACCAATTACAACTTGTTTTACTGGTATAAGGGCCTGGATTA
TACATTACAGTGTGTTTGATTATGTCAGATCTAGGGGAAAAAAATATCACATGCAAGTTTCCCTACTTGGAATCATCGGG
ACTATAAGATTTCTATATCCCCTGTTAATGGGATCATCAGAATCTATTACTATCTGAACCGTCTTATTTCATTTTTCAGC
TTCAAAATATAGTTAAACTTTTGTCAACAGGTTAT

Alignment

ORF - retro_tbel_3596 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.86 %
• Parental protein coverage: 51.2 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  RNIDSERWKTIITKNLYYKDGFDLNKGIEARIHTILPGQCTNGSEVQSSWTEATYWTSLQGNLETKIQDM
          ....SER.K.IITKNLYYKDGFDLNKGIEARIHTILPGQCTNG.EVQSSW.EATY.TSLQ.NLETKIQ.M
Retrocopy KTLGSERRKIIITKNLYYKDGFDLNKGIEARIHTILPGQCTNGLEVQSSWKEATY*TSLQENLETKIQYM

Parental  DCVYYNWQYLLCSWKPGMDANSDTNYNLFYWYEGLDYTLQCV-DYIKASG-KNIGCKFPYLESSDYKDFY
          DCV.YNWQYLLCSWK.GM..NSDTNYNLFYWY.GLDYTLQCV.DY....G.KNI.CKFPYLESS...DFY
Retrocopy DCVHYNWQYLLCSWKTGMEINSDTNYNLFYWYKGLDYTLQCV>DYVRSRG>KNITCKFPYLESSGL*DFY

Parental  I-C-VNGSSESMTI-RASYFIFQLQNIVKPLPPGY
          I.C...GSSES.TI...SYFIFQLQNIVK.L..GY
Retrocopy IPC<LMGSSESITI>EPSYFIFQLQNIVKLLSTGY

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_3596 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3596 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000004962	3 retrocopies	retro_tbel_2994, retro_tbel_3596 , retro_tbel_3689,