Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t5 isoform g12821.t5 26430867 26432183
chr_1 g12821 g12821.t5 exon g12821.t5.exon1 26430867 26431378
chr_1 g12821 g12821.t5 cds g12821.t5.CDS1 26430867 26431378
chr_1 g12821 g12821.t5 exon g12821.t5.exon2 26431440 26431681
chr_1 g12821 g12821.t5 cds g12821.t5.CDS2 26431440 26431681
chr_1 g12821 g12821.t5 exon g12821.t5.exon3 26431736 26431815
chr_1 g12821 g12821.t5 cds g12821.t5.CDS3 26431736 26431815
chr_1 g12821 g12821.t5 exon g12821.t5.exon4 26431882 26431925
chr_1 g12821 g12821.t5 cds g12821.t5.CDS4 26431882 26431925
chr_1 g12821 g12821.t5 exon g12821.t5.exon5 26432084 26432183
chr_1 g12821 g12821.t5 cds g12821.t5.CDS5 26432084 26432183
chr_1 g12821 g12821.t5 TSS g12821.t5 26432456 26432456
chr_1 g12821 g12821.t5 TTS g12821.t5 NA NA

Sequences

>g12821.t5 Gene=g12821 Length=978
ATGAGTTCAAGCAGTAGTGCAAAGCAATCCTTTAAAATTAATTGGGAGAAACAAGAGAGC
TTAGTGAAATTAAGCATCTTAATTCTCGCTGCAATATTATCTTTTGCAACACGTCTCTTC
TCTGTTCTCCGTTTTGAATCAGTGATTCATGAATTCGATCCATACTTTAATTATCGAACT
ACCAAATTTCTCACTGAGAAAGGATTTTATAACTTCCACAACTGGTTCGATGAAATGGCT
TGGTATCCGCTTGGAAGAATTATCGGAGGAACAATTTATCCCGGCTTGATGGTGACTTCA
TCAGCAATTTATCGTATTTTATGGTTTTTCAATATGACTGTTGACATAAGAAACATTTGT
GTGTTTTTGGCTCCTCTTTTCTCCTCATTCACGACTATCGTCACATATTTACTAACTTCC
GAAATTTACTCGACGGGCGCTGGACTTGTTGCAGCTTCTTTCATTGCAATTGTTCCTGGT
TACATTTCAAGATCAGTAGCTGGTTCATATGATAACGAAGGAATTGCAATTTTTGCTATG
CTTCTTACTTATTATTTATGGATTAAAGCTGTTAAAACAGGCACAATTTGTTGGTCTGCT
CTTGCTAGTTTGGCATACTTTTATATGGTTTCTAGTTGGGGTGGTTACGTGTTTTTAATC
AACTTGATTCCTTTGCACGTGCTAGCTTTAATGATCACAGGAAGATTTTCACATCGTGTA
TATGTGGCATATAGCTCTGTTTATACAATCGGAACAATTTTGAGCATGCAAATCTCATTC
GTCGGATTTCAACCAGTTCAATCATCAGAACATATGCTTGCATTTGGAACATTTGGATTG
TGCCAACTTCATGCACTTGTTGATTTCCTCAAGTCAAAATTATCAAAAGAACAATTTGAA
GTATTATTCAAATCAATTGCTATAGCTATTCTTTCAATTTTCCTTGGTTTTGCTGCAGTT
CTTACTTTATCAGGAAAA

>g12821.t5 Gene=g12821 Length=326
MSSSSSAKQSFKINWEKQESLVKLSILILAAILSFATRLFSVLRFESVIHEFDPYFNYRT
TKFLTEKGFYNFHNWFDEMAWYPLGRIIGGTIYPGLMVTSSAIYRILWFFNMTVDIRNIC
VFLAPLFSSFTTIVTYLLTSEIYSTGAGLVAASFIAIVPGYISRSVAGSYDNEGIAIFAM
LLTYYLWIKAVKTGTICWSALASLAYFYMVSSWGGYVFLINLIPLHVLALMITGRFSHRV
YVAYSSVYTIGTILSMQISFVGFQPVQSSEHMLAFGTFGLCQLHALVDFLKSKLSKEQFE
VLFKSIAIAILSIFLGFAAVLTLSGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g12821.t5 PANTHER PTHR13872:SF43 DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE SUBUNIT STT3A 10 326 8.8E-172
3 g12821.t5 PANTHER PTHR13872 DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE SUBUNIT 10 326 8.8E-172
1 g12821.t5 Pfam PF02516 Oligosaccharyl transferase STT3 subunit 24 309 7.7E-97
13 g12821.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
24 g12821.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 40 -
20 g12821.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 41 86 -
27 g12821.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 87 107 -
12 g12821.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 108 118 -
30 g12821.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 119 138 -
17 g12821.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 139 143 -
26 g12821.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 144 162 -
14 g12821.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 163 173 -
28 g12821.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 174 201 -
19 g12821.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 202 212 -
22 g12821.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 213 233 -
16 g12821.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 234 239 -
25 g12821.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 240 260 -
18 g12821.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 261 271 -
23 g12821.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 272 290 -
15 g12821.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 291 301 -
29 g12821.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 302 323 -
21 g12821.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 324 326 -
7 g12821.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 42 -
4 g12821.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -
9 g12821.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 116 138 -
6 g12821.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 142 161 -
11 g12821.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 174 191 -
5 g12821.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 206 228 -
10 g12821.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 241 263 -
8 g12821.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 301 323 -

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. There were no conditions that were differentially expressed