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.t4 isoform g12821.t4 26430268 26432183
chr_1 g12821 g12821.t4 exon g12821.t4.exon1 26430268 26430650
chr_1 g12821 g12821.t4 cds g12821.t4.CDS1 26430269 26430650
chr_1 g12821 g12821.t4 exon g12821.t4.exon2 26430709 26430811
chr_1 g12821 g12821.t4 cds g12821.t4.CDS2 26430709 26430811
chr_1 g12821 g12821.t4 exon g12821.t4.exon3 26430866 26431378
chr_1 g12821 g12821.t4 cds g12821.t4.CDS3 26430866 26431378
chr_1 g12821 g12821.t4 exon g12821.t4.exon4 26431440 26431681
chr_1 g12821 g12821.t4 cds g12821.t4.CDS4 26431440 26431681
chr_1 g12821 g12821.t4 exon g12821.t4.exon5 26431736 26431815
chr_1 g12821 g12821.t4 cds g12821.t4.CDS5 26431736 26431815
chr_1 g12821 g12821.t4 exon g12821.t4.exon6 26431882 26431925
chr_1 g12821 g12821.t4 cds g12821.t4.CDS6 26431882 26431925
chr_1 g12821 g12821.t4 exon g12821.t4.exon7 26432084 26432183
chr_1 g12821 g12821.t4 cds g12821.t4.CDS7 26432084 26432183
chr_1 g12821 g12821.t4 TSS g12821.t4 26432456 26432456
chr_1 g12821 g12821.t4 TTS g12821.t4 NA NA

Sequences

>g12821.t4 Gene=g12821 Length=1465
ATGAGTTCAAGCAGTAGTGCAAAGCAATCCTTTAAAATTAATTGGGAGAAACAAGAGAGC
TTAGTGAAATTAAGCATCTTAATTCTCGCTGCAATATTATCTTTTGCAACACGTCTCTTC
TCTGTTCTCCGTTTTGAATCAGTGATTCATGAATTCGATCCATACTTTAATTATCGAACT
ACCAAATTTCTCACTGAGAAAGGATTTTATAACTTCCACAACTGGTTCGATGAAATGGCT
TGGTATCCGCTTGGAAGAATTATCGGAGGAACAATTTATCCCGGCTTGATGGTGACTTCA
TCAGCAATTTATCGTATTTTATGGTTTTTCAATATGACTGTTGACATAAGAAACATTTGT
GTGTTTTTGGCTCCTCTTTTCTCCTCATTCACGACTATCGTCACATATTTACTAACTTCC
GAAATTTACTCGACGGGCGCTGGACTTGTTGCAGCTTCTTTCATTGCAATTGTTCCTGGT
TACATTTCAAGATCAGTAGCTGGTTCATATGATAACGAAGGAATTGCAATTTTTGCTATG
CTTCTTACTTATTATTTATGGATTAAAGCTGTTAAAACAGGCACAATTTGTTGGTCTGCT
CTTGCTAGTTTGGCATACTTTTATATGGTTTCTAGTTGGGGTGGTTACGTGTTTTTAATC
AACTTGATTCCTTTGCACGTGCTAGCTTTAATGATCACAGGAAGATTTTCACATCGTGTA
TATGTGGCATATAGCTCTGTTTATACAATCGGAACAATTTTGAGCATGCAAATCTCATTC
GTCGGATTTCAACCAGTTCAATCATCAGAACATATGCTTGCATTTGGAACATTTGGATTG
TGCCAACTTCATGCACTTGTTGATTTCCTCAAGTCAAAATTATCAAAAGAACAATTTGAA
GTATTATTCAAATCAATTGCTATAGCTATTCTTTCAATTTTCCTTGGTTTTGCTGCAGTT
CTTACTTTATCAGGAAAAATTTCACCTTGGACTGGACGTTTCTACTCTCTATTGGACCCT
TCATATGCCAAAAATCATATTCCTATCATTGCTTCTGTATCTGAGCATCAGCCTACAAGT
TGGTCATCATTCTATTTTGATCTTCAAATATTAGTTTTCTTATTCCCTGCTGGACTTTAC
TTCTGTTTTGATAAACTCACTGATGCCAACATCTTTATTATTCTCTATGGAGTTACCTCA
ATTTACTTTACAGGAGTTATGGTCCGATTAATGCTAGTTCTTGCACCAGTTATGTGCATT
CTCTCTGGAATTGCTGTTTCTCATTTGCTTTCAAAATACATAAGAAATGTGGATGCCTCA
GTTAGCGTATTGAGTAGCGATGGAAAGTCACAGCCACGTCAAGAATCTTCCAAAAAGTAC
AAGAAATATGATCAGCAACAAAAAGGAATTAAAAGTGAAATTGCTATTGGATTTGTTGTA
TTGACAACATTTATGTTGATAAGCT

>g12821.t4 Gene=g12821 Length=488
MSSSSSAKQSFKINWEKQESLVKLSILILAAILSFATRLFSVLRFESVIHEFDPYFNYRT
TKFLTEKGFYNFHNWFDEMAWYPLGRIIGGTIYPGLMVTSSAIYRILWFFNMTVDIRNIC
VFLAPLFSSFTTIVTYLLTSEIYSTGAGLVAASFIAIVPGYISRSVAGSYDNEGIAIFAM
LLTYYLWIKAVKTGTICWSALASLAYFYMVSSWGGYVFLINLIPLHVLALMITGRFSHRV
YVAYSSVYTIGTILSMQISFVGFQPVQSSEHMLAFGTFGLCQLHALVDFLKSKLSKEQFE
VLFKSIAIAILSIFLGFAAVLTLSGKISPWTGRFYSLLDPSYAKNHIPIIASVSEHQPTS
WSSFYFDLQILVFLFPAGLYFCFDKLTDANIFIILYGVTSIYFTGVMVRLMLVLAPVMCI
LSGIAVSHLLSKYIRNVDASVSVLSSDGKSQPRQESSKKYKKYDQQQKGIKSEIAIGFVV
LTTFMLIS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g12821.t4 PANTHER PTHR13872:SF43 DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE SUBUNIT STT3A 10 488 6.8E-249
3 g12821.t4 PANTHER PTHR13872 DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE SUBUNIT 10 488 6.8E-249
1 g12821.t4 Pfam PF02516 Oligosaccharyl transferase STT3 subunit 24 481 3.8E-137
18 g12821.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
34 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 40 -
29 g12821.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 41 86 -
40 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 87 107 -
17 g12821.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 108 118 -
43 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 119 138 -
25 g12821.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 139 143 -
37 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 144 162 -
20 g12821.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 163 173 -
41 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 174 201 -
28 g12821.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 202 212 -
31 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 213 233 -
23 g12821.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 234 239 -
35 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 240 260 -
26 g12821.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 261 271 -
33 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 272 290 -
22 g12821.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 291 301 -
42 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 302 323 -
30 g12821.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 324 363 -
36 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 364 382 -
19 g12821.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 383 388 -
39 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 389 405 -
27 g12821.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 406 410 -
32 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 411 430 -
21 g12821.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 431 468 -
38 g12821.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 469 487 -
24 g12821.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 488 488 -
11 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 42 -
4 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -
15 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 116 138 -
7 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 142 161 -
16 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 174 191 -
5 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 206 228 -
12 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 240 262 -
6 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 272 289 -
14 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 301 323 -
10 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 361 383 -
9 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 390 407 -
8 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 411 430 -
13 g12821.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 469 487 -

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

Pathway

  • This transcript belongs to the following pathways

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