RetrogeneDB ID: retro_tbel_3194

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_13364:79346..80237(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000014368
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000007367
• Aliases: None
• Description: None

Sequence

>retro_tbel_3194
ATGAGAAATCGCACAATGGTGACTGAATTCTTCCTGCGGGGAATCCCTGAGTCAGAGGGCCTGGAGACAACCCTTTTATT
CCTGTTCTCGTCAATATATTCTTGCACCCTCTTGGGAAATGTGCTCATCCTCACGGCGATCCTCTCCTCCTCTCGGCTTC
ACACTCCCATGTATTTTTTTGGGGGTAAATCTCTCCATTTTGGACCTGGGGTACTCTTCAACCACTGCTCCCAAGATGCT
GTTGAACCTTTCAGGGAAGAGTCAGAGGATCTCTTTCCAGGGCTGTGCTGCCCAGCTCTTCTTCCATCATTTCCTGGGAT
GCAGTGAGTGCTTCCTGTACATGGTGATGGCCTTGGACCGCTATGTAGTCATTCGTCATCCCCTGAGGTACACGGTCATA
ATGAATCCCAGGGTCTGCTCCATCTTGGCCACAGGTTCCTGCCTGGGTGGCTCTGCCCAGGCCATCACCCTAAGCTCTCT
CACCTTCCAGTTACCCTGCTGTGGGTCTAGCGAGGTGTCTCATTTCTTTTGTGATGTGCCTGCAGTGTTATTGCGAGCCT
GTGAGGACACATCTGTAGCCCAGAGGGTAGGTTTTATAAATGTTGGTCTTTTGGCTTTTACATGCTTATTCCTCATCTTT
GTTTCCTACATTCACATCGGGATCGCTATATCAAAAATCCACTCAGCAGAGGGCAGGCATCGCATCGTGCCTTCTCAACC
TGCAGTGCCCACATTGCTGCAATTCTTTGTGCTTATGGGCCAGTGTTCATCATCTTTCTTCAGCCCAATCCCAGCCCCTT
ATTTGGTGCCACAATTCAGATGTTCAATAATCTTGTAAGCCCCATGTTGAACCCCCTCATCTACAGCCTGAGGAATAAGG
ATGTAAATTTA

Alignment

ORF - retro_tbel_3194 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.29 %
• Parental protein coverage: 98.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MRNRTMVIEFFLQGIPESEGLETTLLFLFSSIYSCTLLGSVLILMAILSSSRLHTPMYFFLG-NLSILDL
          MRNRTMV.EFFL.GIPESEGLETTLLFLFSSIYSCTLLG.VLIL.AILSSSRLHTPMYFF.G.NLSILDL
Retrocopy MRNRTMVTEFFLRGIPESEGLETTLLFLFSSIYSCTLLGNVLILTAILSSSRLHTPMYFFGG>NLSILDL

Parental  GYSSTTAPKMLLNLSGKSQRISFQGCAAQLFFHHFLGCSEFFLYTVMALDSYVAIRHPLRYTVIMNPRVC
          GYSSTTAPKMLLNLSGKSQRISFQGCAAQLFFHHFLGCSE.FLY.VMALD.YV.IRHPLRYTVIMNPRVC
Retrocopy GYSSTTAPKMLLNLSGKSQRISFQGCAAQLFFHHFLGCSECFLYMVMALDRYVVIRHPLRYTVIMNPRVC

Parental  SILATGSWLGGSAQAITLSSLTFQLPYCGSNTVSYFFCDVPAVLPLACEDTSVAQRVGFINVGLLAFTCL
          SILATGS.LGGSAQAITLSSLTFQLP.CGS..VS.FFCDVPAVL..ACEDTSVAQRVGFINVGLLAFTCL
Retrocopy SILATGSCLGGSAQAITLSSLTFQLPCCGSSEVSHFFCDVPAVLLRACEDTSVAQRVGFINVGLLAFTCL

Parental  FLIFVS--YIHIGIAI-SKIRSAEGRHRSFSTCSAHVAAILCAYGPVLIIFLQPNPSPLFGATIQMFNNL
          FLIFVS...I.I.I............HR.FSTCSAH.AAILCAYGPV.IIFLQPNPSPLFGATIQMFNNL
Retrocopy FLIFVSYIHIGIAISK<NPLSRGQASHRAFSTCSAHIAAILCAYGPVFIIFLQPNPSPLFGATIQMFNNL

Parental  VSPMLNPLIYGLRNKDVNL
          VSPMLNPLIY.LRNKDVNL
Retrocopy VSPMLNPLIYSLRNKDVNL

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_3194 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_3194 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000007367	1 retrocopy	retro_tbel_3194 ,