Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Dolichyl-diphosphooligosaccharide–protein glycosyltransferase subunit STT3A.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_1 g12821 g12821.t6 isoform g12821.t6 26431452 26432183
chr_1 g12821 g12821.t6 exon g12821.t6.exon1 26431452 26431681
chr_1 g12821 g12821.t6 cds g12821.t6.CDS1 26431453 26431681
chr_1 g12821 g12821.t6 exon g12821.t6.exon2 26431736 26431815
chr_1 g12821 g12821.t6 cds g12821.t6.CDS2 26431736 26431815
chr_1 g12821 g12821.t6 exon g12821.t6.exon3 26431882 26431925
chr_1 g12821 g12821.t6 cds g12821.t6.CDS3 26431882 26431925
chr_1 g12821 g12821.t6 exon g12821.t6.exon4 26432084 26432183
chr_1 g12821 g12821.t6 cds g12821.t6.CDS4 26432084 26432183
chr_1 g12821 g12821.t6 TSS g12821.t6 26432456 26432456
chr_1 g12821 g12821.t6 TTS g12821.t6 NA NA

Sequences

>g12821.t6 Gene=g12821 Length=454
ATGAGTTCAAGCAGTAGTGCAAAGCAATCCTTTAAAATTAATTGGGAGAAACAAGAGAGC
TTAGTGAAATTAAGCATCTTAATTCTCGCTGCAATATTATCTTTTGCAACACGTCTCTTC
TCTGTTCTCCGTTTTGAATCAGTGATTCATGAATTCGATCCATACTTTAATTATCGAACT
ACCAAATTTCTCACTGAGAAAGGATTTTATAACTTCCACAACTGGTTCGATGAAATGGCT
TGGTATCCGCTTGGAAGAATTATCGGAGGAACAATTTATCCCGGCTTGATGGTGACTTCA
TCAGCAATTTATCGTATTTTATGGTTTTTCAATATGACTGTTGACATAAGAAACATTTGT
GTGTTTTTGGCTCCTCTTTTCTCCTCATTCACGACTATCGTCACATATTTACTAACTTCC
GAAATTTACTCGACGGGCGCTGGACTTGTTGCAG

>g12821.t6 Gene=g12821 Length=151
MSSSSSAKQSFKINWEKQESLVKLSILILAAILSFATRLFSVLRFESVIHEFDPYFNYRT
TKFLTEKGFYNFHNWFDEMAWYPLGRIIGGTIYPGLMVTSSAIYRILWFFNMTVDIRNIC
VFLAPLFSSFTTIVTYLLTSEIYSTGAGLVA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g12821.t6 PANTHER PTHR13872:SF43 DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE SUBUNIT STT3A 10 151 1.9E-72
3 g12821.t6 PANTHER PTHR13872 DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE SUBUNIT 10 151 1.9E-72
1 g12821.t6 Pfam PF02516 Oligosaccharyl transferase STT3 subunit 23 151 4.1E-40
8 g12821.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
13 g12821.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 40 -
10 g12821.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 41 86 -
12 g12821.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 87 107 -
7 g12821.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 108 118 -
11 g12821.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 119 139 -
9 g12821.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 140 151 -
5 g12821.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 42 -
4 g12821.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -
6 g12821.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 116 138 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0016020 membrane CC
GO:0006486 protein glycosylation BP
GO:0004576 oligosaccharyl transferase activity MF

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values