Gene loci information

Transcript annotation

  • This transcript has been annotated as Dolichyl-diphosphooligosaccharide–protein glycosyltransferase subunit STT3B.

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_3 g218 g218.t6 TTS g218.t6 1820103 1820103
chr_3 g218 g218.t6 isoform g218.t6 1820572 1822944
chr_3 g218 g218.t6 exon g218.t6.exon1 1820572 1820652
chr_3 g218 g218.t6 exon g218.t6.exon2 1820719 1820911
chr_3 g218 g218.t6 exon g218.t6.exon3 1820975 1821364
chr_3 g218 g218.t6 exon g218.t6.exon4 1821498 1822067
chr_3 g218 g218.t6 cds g218.t6.CDS1 1821503 1822067
chr_3 g218 g218.t6 exon g218.t6.exon5 1822119 1822944
chr_3 g218 g218.t6 cds g218.t6.CDS2 1822119 1822909
chr_3 g218 g218.t6 TSS g218.t6 1823553 1823553

Sequences

>g218.t6 Gene=g218 Length=2060
GTCGAATTGTTGGTGGAACTGTGTATCCTGGTCTTATGATTACTTCTGGTGGAATTCATT
GGTTATTACATCTTCTCAATATTCCCGTATATATTCGTGATATTTGTGTGTTCCTTGCAC
CAATTTTTAGTGGTCTCACTGCAATTTCAACTTATCTTTTGACCAAAGAATTATGGAGTC
CAGGTGCTGGATTATTTGCAGCTTCATTTATAGCTATCGTTCCTGGTTATATTTCAAGAT
CAGTTGCTGGATCATATGACAACGAAGGAATTGCCATTTTTGCACTTCAATTTACGTATT
ACCTTTGGGTGAAATCTGTAAAAACAGGCTCTATCTTTTGGGCTGCTTCAACTGCTCTCT
CCTATTTCTATATGGTTTCTGCTTGGGGAGGATATGTTTTCATTATCAATCTTATTCCAT
TACACGTGTTTGTGTTGCTCATCATGAATCGTTATTCGCATCGTTTGTTTACTAGCTACA
CAACATTCTACATTCTTGGACTCATCTTTTCAATGCAAATTCCATTCGTCGGCTTCCAAC
CGATTCGAACGAGTGAGCACATGGCTGCATCCGGTGTTTTTGCTCTTCTCATAGCTGTCG
GGATTTTGAAACATTTACAAACCGTCCTTACAAAGCAAGAATTCAAGCGATTATTTATTC
TCGGCGGTCTCACTGCCGCTGGCATAGTATTTATGACTGTTGTTGGTCTCACAATGGCTG
GAGTTATTGCACCATGGTCAGGACGTTTCTACTCACTTTGGGACACTGGGTATGCTAAAA
TTCACATTCCAATCATTGCTTCAGTTTCTGAACATCAACCTACAACGTGGTTTTCTTTCT
TCTTCGATCTGCACATTCTTGTGTGCACTTTCCCCGTCGGATTATGGTATGCTATAAAGA
AAATCAACGATGAGCGTGTTTTTGTTGTGCTCTATGCGATCTCAGCAGTATATTTCGCTG
GTGTGATGGTTCGATTGATGTTGACTTTGACACCAGTTGTTTGCATTCTGGCGGGTGTTG
CATTCTCAAGTCTTTTGGAAGTCTTCCTTAAAGAAGATCAACCAATTACTCAAAAGGATG
AAACAGAACAAGAAGAACCAGCCGAAAAGAAGCTATATGATAAGGCAGGAAAAATTAAGC
CAAGAAAGCATGATAACAACAAAAATGAGAATAAAGGTCTTGGGTCAAATATTAAATCAA
TGGTAGTTATTGCAATTTTGATGCTACTTATGATGTTCGCTGTACATTGTACATGGGTCA
CTAGCAATGCATACTCTTCACCATCAATTGTATTGGCATTTTACAATCAAGGCGATGGCT
CAAGAAATATTCTCGATGATTTCCGTGAAGCATATTATTGGCTCTGGCAAAATACTGAAG
ATGTAAGATAAATTTATTGGTGGGATTATGGCTATCAGATAGCGGGAATGGCGAATCGGA
CAACGCTAGTAGACAATAATACGTGGAATAATAGTCATATAGCTTTAGTTGGAAAAGCAA
TGTCATCGTCAGAAGAAAAAGCTCATGAAATTTACACATCTTTAGGTGCTGATTATGTTC
TTGTAATCTTTGGTGGTGTGATTGGTTATTCAGGCGATGACATTAATAAGTTTTTGTGGA
TGGTACGAATTGCCGAAGGCGAGCATCCAAAAGATATAAGAGAAAGTGACTACTTTACTG
AACGTGGTGAATTCAGAGTTGATTCAGAAGGTTCACCTACACTTCTTAATTGCTTGATGT
ACAAGCTAAGTTATTATAGATTTGGTGAATTAAAACTTGATTATAGAGGACCAGCTGGTT
TTGATCGTACAAGAAATGCAGTAATTGGTAATAAAGATTTTGATTTAACTTACTTTGAAG
AGGTCTACACTAGCGAGCACTGGCTGGTGCGTATTTATCGTGTTAAGAAACCAGACGAAT
TCAATCGTCCATCGCTCAAACCACAGAAGCGCTCTGGTTTTGATTCAATCACAAAAAAAA
CATCAAAACGAAGAAAAGGCGTCATCAAAAATCGTCCTGTAGTGGTGAAAGGCAAACGGT
CAACGATAAAAGCCAACTAG

>g218.t6 Gene=g218 Length=451
MITSGGIHWLLHLLNIPVYIRDICVFLAPIFSGLTAISTYLLTKELWSPGAGLFAASFIA
IVPGYISRSVAGSYDNEGIAIFALQFTYYLWVKSVKTGSIFWAASTALSYFYMVSAWGGY
VFIINLIPLHVFVLLIMNRYSHRLFTSYTTFYILGLIFSMQIPFVGFQPIRTSEHMAASG
VFALLIAVGILKHLQTVLTKQEFKRLFILGGLTAAGIVFMTVVGLTMAGVIAPWSGRFYS
LWDTGYAKIHIPIIASVSEHQPTTWFSFFFDLHILVCTFPVGLWYAIKKINDERVFVVLY
AISAVYFAGVMVRLMLTLTPVVCILAGVAFSSLLEVFLKEDQPITQKDETEQEEPAEKKL
YDKAGKIKPRKHDNNKNENKGLGSNIKSMVVIAILMLLMMFAVHCTWVTSNAYSSPSIVL
AFYNQGDGSRNILDDFREAYYWLWQNTEDVR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g218.t6 PANTHER PTHR13872 DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE SUBUNIT 1 449 2.3E-173
1 g218.t6 Pfam PF02516 Oligosaccharyl transferase STT3 subunit 1 414 3.5E-109
18 g218.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 22 -
35 g218.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 23 41 -
25 g218.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 42 46 -
26 g218.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 47 66 -
17 g218.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 67 77 -
34 g218.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 78 104 -
21 g218.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 105 109 -
31 g218.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 110 137 -
16 g218.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 138 148 -
30 g218.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 149 170 -
20 g218.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 171 175 -
33 g218.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 176 194 -
19 g218.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 195 205 -
27 g218.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 206 232 -
23 g218.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 233 264 -
36 g218.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 265 287 -
15 g218.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 288 293 -
28 g218.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 294 312 -
24 g218.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 313 317 -
32 g218.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 318 338 -
14 g218.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 339 388 -
29 g218.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 389 409 -
22 g218.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 410 451 -
11 g218.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 9 31 -
8 g218.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 46 68 -
4 g218.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 81 103 -
5 g218.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 113 135 -
12 g218.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 148 170 -
10 g218.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 175 194 -
3 g218.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 206 228 -
13 g218.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 265 287 -
6 g218.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 294 312 -
9 g218.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 316 338 -
7 g218.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 381 403 -

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