RetrogeneDB ID: retro_tbel_2994

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_126004:86316..87096(-)
• 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_2994
TATCGAAACATTGATAGAGAAAGATGGAAGACCATTATTACTAAGAATCTATATTACAAAGATGGATTTGATCTTAACAA
GGGCATTGAAGCAAGGATACACACAATTTTGCCAGGACAATGCACAAATGGATCAGAAGTTCAAAGTTCATGGACATAAG
CTACTTACTGGACATCACTACAAGGAAATATGGAAACTAAAATTCAGGATATGGATTGTGTATATTACAATTGGCAATAT
TTACTCTGTTCTTGGAAACCTGGCATGGATACAAATTCTGATAACAATTACAACTTGTTTTACTGGTATGAGGACCTGGA
TTATACATTACAATGTGTTGATTACATCAAGGCTAGTGGAAAAAATATCGGATGCAAGTTTCCCTACTTGGAATCATCGG
ACTATAAAAATTTCTCTATCTGTGTTAATGGATCATCAGAATCCATGACTATCTGAGCCAGCTATTTCATTTTTCAGCTT
CAAAATATAGTTAAACCGTTGCCACCAGGTTATCTTAGTCTTTCTATGAAGAATTCAGATGAAGTTAACCTAAAATAGAG
CATACCTACAGGACCCATTCCAGAAAGGTGTTTCATTTATGAAATTGAGTTCACAGAAGATGATACTACCTGGCTGACGA
CAACAGTGGAAAATGAAATGTATATCACAAGAACCTCAAATGAAAGCCAACAATTATGCTTTTCAGTAAGAAGCAAAGTG
AATATTGATTGCTCAGATGAAGGAATTTGGAGTGATTGGAGTGAGAAACAATGCTGGAAA

Alignment

ORF - retro_tbel_2994 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95. %
• Parental protein coverage: 78.31 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YRNIDSERWKTIITKNLYYKDGFDLNKGIEARIHTILPGQCTNGSEVQSSWTEATYWTSLQGNLETKIQD
          YRNID.ERWKTIITKNLYYKDGFDLNKGIEARIHTILPGQCTNGSEVQSSWT.ATYWTSLQGN.ETKIQD
Retrocopy YRNIDRERWKTIITKNLYYKDGFDLNKGIEARIHTILPGQCTNGSEVQSSWT*ATYWTSLQGNMETKIQD

Parental  MDCVYYNWQYLLCSWKPGMDANSDTNYNLFYWYEGLDYTLQCVDYIKASGKNIGCKFPYLESSDYKDFYI
          MDCVYYNWQYLLCSWKPGMD.NSD.NYNLFYWYE.LDYTLQCVDYIKASGKNIGCKFPYLESSDYK.F.I
Retrocopy MDCVYYNWQYLLCSWKPGMDTNSDNNYNLFYWYEDLDYTLQCVDYIKASGKNIGCKFPYLESSDYKNFSI

Parental  CVNGSSESMTIRASYFIFQLQNIVKPLPPGYLSLSMKNSDEVNLKWSIPTGPIRERCFIYEIEFTEDDTS
          CVNGSSESMTI.ASYFIFQLQNIVKPLPPGYLSLSMKNSDEVNLK.SIPTGPI.ERCFIYEIEFTEDDT.
Retrocopy CVNGSSESMTI*ASYFIFQLQNIVKPLPPGYLSLSMKNSDEVNLK*SIPTGPIPERCFIYEIEFTEDDTT

Parental  WLTTTVENEMYITRTSNESQQLCFSVRSKVNIYCSDEGIWSDWSEKQCWK
          WLTTTVENEMYITRTSNESQQLCFSVRSKVNI.CSDEGIWSDWSEKQCWK
Retrocopy WLTTTVENEMYITRTSNESQQLCFSVRSKVNIDCSDEGIWSDWSEKQCWK

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_2994 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2994 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,