RetrogeneDB ID: retro_tbel_378

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_1903:143825..144104(+)
• Located in intron of: ENSTBEG00000000327

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000005996
• Aliases: None
• Description: None

Sequence

>retro_tbel_378
AGGGAATATTTAATATCTCAACAAGAACATCTGAAAATCACCAAAGTTAACAGCTATAATTTTTCCTTTCTTCATGGATA
TACTAATATTGTGGCTATATTTGAGATAATGGACTCCTCAAACAGATGCTCTATGTCATTTGTGTAGTATAAATACATCC
TAAAAACCCTGGGTCTGTGTAAGGGAAGATGAAGGTTTAAGAATGATGGGCATGCAATAATTTTGGAGAAATTCAAGGAT
GAAGTGAGCAAAAGGATTCAGGAAATATGGTTGGCATTT

Alignment

ORF - retro_tbel_378 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.37 %
• Parental protein coverage: 70.45 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  REYLISQLERLRIAKE-TGVAFPFFLD-NSNIVAMFEIMDSSNKGSISFVQYKEALKTLGLCKEDEVLKD
          REYLISQ.E.L.I.K..T...FPFF.D...NIVA.FEIMDSSN..S.SFV.YK..LKTLGLCK.....K.
Retrocopy REYLISQQEHLKITKV>TAIIFPFFMD<YTNIVAIFEIMDSSNRCSMSFV*YKYILKTLGLCKGR*RFKN

Parental  DGHAITLEKFRNEVNKRTQEIWLAF
          DGHAI.LEKF..EV.KR.QEIWLAF
Retrocopy DGHAIILEKFKDEVSKRIQEIWLAF

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_378 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_378 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 4 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Mustela putorius furo	ENSMPUG00000018257	1 retrocopy	retro_mputfur_1356,
Otolemur garnettii	ENSOGAG00000000454	1 retrocopy	retro_ogar_2480,
Tupaia belangeri	ENSTBEG00000005996	4 retrocopies	retro_tbel_1203, retro_tbel_1564, retro_tbel_377, retro_tbel_378 ,
Tursiops truncatus	ENSTTRG00000001481	1 retrocopy	retro_ttru_796,