RetrogeneDB ID: retro_tbel_467

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_2141:266027..266520(-)
• Located in intron of: ENSTBEG00000017526

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTBEG00000006275
• Aliases: None
• Description: None

Sequence

>retro_tbel_467
GAAGGCCTTCAGGGAAGTTCTCTGGCCCTTGAGGCCGCCATCGCTGATGCTAAGCAGTTTGGGGAGCTGGCCATTAAGTA
GCCAATGCCAGGCTAGACAAGCTGGAGGCCACCCTGCAGGGAACCAAGCAGGACAGGGCTTGACAGCTCTGTGAGTACCA
GGAGGTTCTGAATGTCAAGCTGGCCCTGGCATTTAGATTGCCTCCTATCACAAGCTGCTGGAGGGTGAGGAGAGCTGGCT
GGATTCTGGGATGCAAAACATGAGTATCTATAAGAAGACCACTAGTGGCTACTCAGGTGGGCTGACATCAGCCTGTGGGG
AACTCACAACCCCTGGCCTCAACCATGGCCTGAGCTCCTCACAGTCTAGCTTCCTCTCTGGCAGAGGCTCTGGCTCATTC
AGCTGCAGCAGCTCCACCAAGGCTGTGGTCATGAAGAAGACTGAGATGCATGATGGGAAGCTGGTGTCTGAGTCCTCTAA
CGTCCTGCTCAAA

Alignment

ORF - retro_tbel_467 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.06 %
• Parental protein coverage: 63.75 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EGLKGQRASLEAAIADAEQRGELAIK-DANAKLAQLEAALQQAKQDMARQLREYQELMNVKLAL-DIEIA
          EGL.G....LEAAIADA.Q.GELAIK..ANA.L..LEA.LQ..KQD.A.QL.EYQE..NVKLAL..I.IA
Retrocopy EGLQGSSLALEAAIADAKQFGELAIK<VANARLDKLEATLQGTKQDRA*QLCEYQEVLNVKLAL<GI*IA

Parental  TYRKLLEGEESRLESGMQNMSIHTKTTSGYSGGLTYG---LTSPG-NYGLSSFQSSFSSG-GSSPFSRTS
          .Y.KLLEGEES.L.SGMQNMSI..KTTSGYSGGLT.....LT.PG.N.GLSS.QSSF.SG.GS..FS..S
Retrocopy SYHKLLEGEESWLDSGMQNMSIYKKTTSGYSGGLTSACGELTTPGLNHGLSSSQSSFLSGRGSGSFSCSS

Parental  STKAVVVKKIETRDGKLVSESSDVLPK
          STKAVV.KK.E..DGKLVSESS.VL.K
Retrocopy STKAVVMKKTEMHDGKLVSESSNVLLK

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_467 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_467 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000006275	4 retrocopies	retro_tbel_1815, retro_tbel_2795, retro_tbel_3853, retro_tbel_467 ,