Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t7 TTS g218.t7 1820103 1820103
chr_3 g218 g218.t7 isoform g218.t7 1820977 1822222
chr_3 g218 g218.t7 exon g218.t7.exon1 1820977 1821364
chr_3 g218 g218.t7 cds g218.t7.CDS1 1821302 1821364
chr_3 g218 g218.t7 exon g218.t7.exon2 1821512 1822067
chr_3 g218 g218.t7 cds g218.t7.CDS2 1821512 1821928
chr_3 g218 g218.t7 exon g218.t7.exon3 1822119 1822222
chr_3 g218 g218.t7 TSS g218.t7 NA NA

Sequences

>g218.t7 Gene=g218 Length=1048
GTTATTGCACCATGGTCAGGACGTTTCTACTCACTTTGGGACACTGGGTATGCTAAAATT
CACATTCCAATCATTGCTTCAGTTTCTGAACATCAACCTACAACGTGGTTTTCTTTCTTC
TTCGATCTGCACATTCTTGTGTGCACTTTCCCCGTCGGATTATGGTATGCTATAAAGAAA
ATCAACGATGAGCGTGTTTTTGTTGTGCTCTATGCGATCTCAGCAGTATATTTCGCTGGT
GTGATGGTTCGATTGATGTTGACTTTGACACCAGTTGTTTGCATTCTGGCGGGTGTTGCA
TTCTCAAGTCTTTTGGAAGTCTTCCTTAAAGAAGATCAACCAATTACTCAAAAGGATGAA
ACAGAACAAGAAGAACCAGCCGAAAAGAAGCTATATGATAAGGCAGGAAAAATTAAGCCA
AGAAAGCATGATAACAACAAAAATGAGAATAAAGGTCTTGGGTCAAATATTAAATCAATG
GTAGTTATTGCAATTTTGATGCTACTTATGATGTTCGCTGTACATTGTACATGGGTCACT
AGCAATGCATACTCTTCACCATCAATTGTATTGGCATTTTACAATCAAGGCGATGGCTCA
AGAAATATTCTCGATGATTTCCGTGAAGCATATTATTGGCTCTGGCAAAATACTGAAGAT
TTGGTGGGATTATGGCTATCAGATAGCGGGAATGGCGAATCGGACAACGCTAGTAGACAA
TAATACGTGGAATAATAGTCATATAGCTTTAGTTGGAAAAGCAATGTCATCGTCAGAAGA
AAAAGCTCATGAAATTTACACATCTTTAGGTGCTGATTATGTTCTTGTAATCTTTGGTGG
TGTGATTGGTTATTCAGGCGATGACATTAATAAGTTTTTGTGGATGGTACGAATTGCCGA
AGGCGAGCATCCAAAAGATATAAGAGAAAGTGACTACTTTACTGAACGTGGTGAATTCAG
AGTTGATTCAGAAGGTTCACCTACACTTCTTAATTGCTTGATGTACAAGCTAAGTTATTA
TAGATTTGGTGAATTAAAACTTGATTAT

>g218.t7 Gene=g218 Length=159
MVRLMLTLTPVVCILAGVAFSSLLEVFLKEDQPITQKDETEQEEPAEKKLYDKAGKIKPR
KHDNNKNENKGLGSNIKSMVVIAILMLLMMFAVHCTWVTSNAYSSPSIVLAFYNQGDGSR
NILDDFREAYYWLWQNTEDLVGLWLSDSGNGESDNASRQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g218.t7 MobiDBLite mobidb-lite consensus disorder prediction 36 69 -
6 g218.t7 MobiDBLite mobidb-lite consensus disorder prediction 36 68 -
2 g218.t7 PANTHER PTHR13872 DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE SUBUNIT 1 139 3.0E-33
1 g218.t7 Pfam PF02516 Oligosaccharyl transferase STT3 subunit 1 104 5.5E-8
11 g218.t7 Phobius SIGNAL_PEPTIDE Signal peptide region 1 21 -
12 g218.t7 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
13 g218.t7 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 16 -
15 g218.t7 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 17 21 -
10 g218.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 22 78 -
14 g218.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 79 98 -
9 g218.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 99 159 -
8 g218.t7 SignalP_EUK SignalP-noTM SignalP-noTM 1 21 -
7 g218.t7 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 28 -
4 g218.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 27 -
3 g218.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 71 93 -

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