Gene loci information

Transcript annotation

  • This transcript has been annotated as Dolichyl-diphosphooligosaccharide–protein glycosyltransferase subunit 1.

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 g12275 g12275.t2 isoform g12275.t2 22113655 22114938
chr_1 g12275 g12275.t2 exon g12275.t2.exon1 22113655 22113699
chr_1 g12275 g12275.t2 exon g12275.t2.exon2 22113799 22114938
chr_1 g12275 g12275.t2 cds g12275.t2.CDS1 22114133 22114888
chr_1 g12275 g12275.t2 TSS g12275.t2 22115633 22115633
chr_1 g12275 g12275.t2 TTS g12275.t2 NA NA

Sequences

>g12275.t2 Gene=g12275 Length=1185
CAAATACAAAGCATGAAATAGTTGTTCATTACGAAAATAACACACCATTTATGACAATTA
CAAGATTAGAGCGCACAATTGAAATCTCACTTTGGGGCAATGTTGCTGTTGAAGAAACAA
TTGATATCATTCATTCTGGCGCTTTGCTTAAAGGTTCATTCTCTCGATATGATTATCAAA
AAGATTCTCGAAGTGGACCAGCAAGTGTAAAATCATACAAAACAATTCTACCAGCATCAG
CAACTGGTGTATATTATCGCGATATTAATGGAAATATTTCAACATCGGCGATGAGAATTT
TAAAGGATTCAGTTGAACTTGATTTGAGACCACGTTTCCCTCTCTTTGGTGGTTGGCGTA
CACATTATACTGTTGGTTACAATGTTCCAAGCTTTGAATATTTATTCCAAAGTGGAGATA
ATTACATGTTGAAAATGAGAGTTTTAGATCACGTTTTTGATGATATGATTGTTGATGAAC
TCATTACAAAAGTTATTCTGCCTGAAGGAAGCAAAAATATTAAGCTTGTTACACCATATA
CAGTAGAACGCAAGCCTGATTCACTTCATTTTACTTATTTGGATATCACAGGACGTCCAG
TCATTACATTCCGCAAAACTAATTTAGTTGAGAATCATATCAACGATTTCAATCTTAAGT
TCAATTTTTCACGCATCATGATGCTTCAAGAACCATTGCTAGTCGTTGTGTTCTTTTATC
TCATCTTTTTATTTGTAATCATTTGGACACGACTTGATTTCTCAATCATCAAGGAACGCG
AGTCGCAACATTTGCATAAAGACTAAGACTTTTTCATTAGTTTATAATATCATTGTTTAA
TAATATGAGAAGTTCAATAGATTCACCTTTTTTAATTATTTTTTGTTCATCGAGTGAATG
CACCAGTTTTTCCTATAATATAATTAATAAATAAAATGATGATTTTTTTCATTAATGAAG
CTCTTTAAATCTCATGTTCAGCTAAATGGAAAAGTTTAAAAAGAAATAATTGTAGCTTCA
TCAATGTTTCAATTTTTTTTTTAAATAAAAAATATTTCCCCAAAAAAAGAACGTGAGTGG
AAATAAACAAATAAAAGAGAAAAAAATAACTATAATTTACACACCACAGCCAGCTGATAG
AGAGAGAAGAAGAAATTTTTCCGTAAAGATAGAATTTCAGTTGCC

>g12275.t2 Gene=g12275 Length=251
MTITRLERTIEISLWGNVAVEETIDIIHSGALLKGSFSRYDYQKDSRSGPASVKSYKTIL
PASATGVYYRDINGNISTSAMRILKDSVELDLRPRFPLFGGWRTHYTVGYNVPSFEYLFQ
SGDNYMLKMRVLDHVFDDMIVDELITKVILPEGSKNIKLVTPYTVERKPDSLHFTYLDIT
GRPVITFRKTNLVENHINDFNLKFNFSRIMMLQEPLLVVVFFYLIFLFVIIWTRLDFSII
KERESQHLHKD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g12275.t2 PANTHER PTHR21049:SF0 DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE SUBUNIT 1 1 245 7.3E-108
3 g12275.t2 PANTHER PTHR21049 RIBOPHORIN I 1 245 7.3E-108
1 g12275.t2 Pfam PF04597 Ribophorin I 2 231 1.0E-84
5 g12275.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 215 -
7 g12275.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 216 235 -
6 g12275.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 236 251 -
4 g12275.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 210 232 -

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:0006486 protein glycosylation BP
GO:0016021 integral component of membrane CC

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