RetrogeneDB ID: retro_tbel_2449

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_110767:94124..94775(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTBEG00000004326
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: GNAI3
• Ensembl ID: ENSTBEG00000015771
• Aliases: None
• Description: guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 3 [Source:HGNC Symbol;Acc:4387]

Sequence

>retro_tbel_2449
GCTGAAGACAAGGCAGTGGTGGAGCTGAGCAAGATGATCCACTGCAACTTGCTGGAGGATGGAGAGGAAGTGGCCAAAGA
AGTGATGCTGCTGCTACTCGGTGTTGGAGAATCTGGTAAAAGCACCATTGTGAAACAGATGAAAATCATTGATGAAGATG
GCTATTCAGAAGAAGAATGTAAACAGTATAAAGTAGCTGTCTACAGCAATACTATACAGTCCATCATTGCAATCATAAGA
CCCATGGGATGGCTAAAGATTGACTTCGGGGAAGCTGCCAAAGCAGATGTCGCCTGGAAATTATTCAAGTTAGCTGGCAG
TGCTGAAAGAGTCATGACTCCAGATCTAGCAGGTGTGATTAAACAGTTATGGCAAGATGGTGGGGTGCAAGCTTGCTTCA
GCAGATCCAGGGAATATCAGTTCAATGATTCTGCTTCATATTATCTAAATGATCTGGATAGAATATCCCAACCCAACTAC
ATTCCAACTCAGCAAGATGTTCTTTGCACAAGGGTGAAGACCACAGGCATTGTCAAAATGCATTTCACCTTCAAAGACCT
TTACTTCAAAAGATTTGTCGTCAGTGGCCAAAGATCAGAGCAGAAAAAGTGGATTCACTGTTGAAGGAGTGACAGCCATT
ATCTTCTGTGT

Alignment

ORF - retro_tbel_2449 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.65 %
• Parental protein coverage: 61.58 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AEDKAAVERSKMIDRNLREDGEKAAKEVKLLLLGAGESGKSTIVKQMKIIHEDGYSEEECKQYKVVVYSN
          AEDKA.VE.SKMI..NL.EDGE..AKEV.LLLLG.GESGKSTIVKQMKII.EDGYSEEECKQYKV.VYSN
Retrocopy AEDKAVVELSKMIHCNLLEDGEEVAKEVMLLLLGVGESGKSTIVKQMKIIDEDGYSEEECKQYKVAVYSN

Parental  TIQSIIAIIRAMGRLKIDFGEAARADDARQLFVLAGSAEEGVMTPELAGVIKRLWRDGGVQACFSRSREY
          TIQSIIAIIR.MG.LKIDFGEAA.AD.A..LF.LAGSAE..VMTP.LAGVIK.LW.DGGVQACFSRSREY
Retrocopy TIQSIIAIIRPMGWLKIDFGEAAKADVAWKLFKLAGSAER-VMTPDLAGVIKQLWQDGGVQACFSRSREY

Parental  QLNDSASYYLNDLDRISQPNYIPTQQDVLRTRVKTTGIVETHFTFKDLYFKMFDVGGQRSERKKWIHCFE
          Q.NDSASYYLNDLDRISQPNYIPTQQDVL.TRVKTTGIV..HFTFKDLYFK.F.V.GQRSE.KKWIHC..
Retrocopy QFNDSASYYLNDLDRISQPNYIPTQQDVLCTRVKTTGIVKMHFTFKDLYFKRFVVSGQRSEQKKWIHC*R

Parental  GVTAIIFC
          .......C
Retrocopy SDSHYLLC

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_2449 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2449 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000010970	1 retrocopy	retro_acar_40,
Choloepus hoffmanni	ENSCHOG00000012718	1 retrocopy	retro_chof_359,
Ciona intestinalis	ENSCING00000005305	1 retrocopy	retro_cint_14,
Ciona savignyi	ENSCSAVG00000001800	1 retrocopy	retro_csav_19,
Otolemur garnettii	ENSOGAG00000013587	1 retrocopy	retro_ogar_993,
Tupaia belangeri	ENSTBEG00000009447	2 retrocopies	retro_tbel_2487, retro_tbel_2974,
Tupaia belangeri	ENSTBEG00000015771	1 retrocopy	retro_tbel_2449 ,
Tarsius syrichta	ENSTSYG00000000556	1 retrocopy	retro_tsyr_288,