RetrogeneDB ID: retro_tbel_2314

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_108869:33069..33652(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SGTB
• Ensembl ID: ENSTBEG00000007148
• Aliases: None
• Description: small glutamine-rich tetratricopeptide repeat (TPR)-containing, beta [Source:HGNC Symbol;Acc:23567]

Sequence

>retro_tbel_2314
TATATACAGGCAAGAGAACTGTATCCAAATAATGCTGTTTATTATTGCAATAGGGCTGCTGCTCAAAGCAAATTAAGTCA
TTACACAATAAGGACTGCGAAAAAGCAATAGCAATTGATTCAAAGTACAACAAGGCTTATTGAAGAATTTGGCTGACTCT
TACTGCTATGAATAAATTTGAAGAAGCAGTTACAAGTTATCAAAAGGCATTAGATCTTGACCCTGAAAATGATTCCTATA
AGTCAAATCTAAAAATAGCAGAACAGAATTAAGAGAGGTATCTAGTCCTACAGGAACTGGATTGAGCTTTGATATGGTTA
GCTTAATAAATAATCCAGCCTTCATTAGTATGGCAGCAAGTTTAATGCAGAACCCTCAAAGTCCACAGCTCATGTCAGAA
ATGATGACAAATGCCATTGGAGGGTCTGCTTCTGGAGTTGGGGCCCTACCTGGCCTGTCTAGCCTCATCCAAGTTTGGCA
GCAGTTTGCTCAGCAGATACAACAACATAATCCTGAACTTATAGAGCAACTGAGAAATCACATCCAGAGCAGATTGTTCA
GCAGCAGCACTGAGGAACATTCC

Alignment

ORF - retro_tbel_2314 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.42 %
• Parental protein coverage: 64.8 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  YTQAIELDPNNAVYYCNRAAAQSKLSHYTDAIKDCEK-AIAIDSKYSKAYGRMGLALTAMNKFEEAVTSY
          Y.QA.EL.PNNAVYYCNRAAAQSKLSHYT..I....K.AIAIDSKY.KAY.R..L.LTAMNKFEEAVTSY
Retrocopy YIQARELYPNNAVYYCNRAAAQSKLSHYT--IRTAKK<AIAIDSKYNKAY*RIWLTLTAMNKFEEAVTSY

Parental  QKALDLDPENDSYKSNLKIAEQ-KLREVSSPTGTGLSFDMASLINNPAFISMAASLMQNPQVQQLMSGMM
          QKALDLDPENDSYKSNLKIAEQ..LREVSSPTGTGLSFDM.SLINNPAFISMAASLMQNPQ..QLMS.MM
Retrocopy QKALDLDPENDSYKSNLKIAEQ<ELREVSSPTGTGLSFDMVSLINNPAFISMAASLMQNPQSPQLMSEMM

Parental  TNAIGGPAAGVGGLTDLSSLIQAGQQFAQQIQQQNPELIEQLRNHIRSRSFSSSTEEHS
          TNAIGG.A.GVG.L..LSSLIQ..QQFAQQIQQ.NPELIEQLRNHI.SR.FSSSTEEHS
Retrocopy TNAIGGSASGVGALPGLSSLIQVWQQFAQQIQQHNPELIEQLRNHIQSRLFSSSTEEHS

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_2314 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_2314 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	ENSTBEG00000007148	1 retrocopy	retro_tbel_2314 ,