General information for g12275.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dolichyl-diphosphooligosaccharide–protein glycosyltransferase subunit 1.
Parent gene
- The parent gene g12275 is located on chr_1: 22114543..22115579 (- strand)
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.t4 | TTS | g12275.t4 | 22113841 | 22113841 |
| chr_1 | g12275 | g12275.t4 | isoform | g12275.t4 | 22114133 | 22115579 |
| chr_1 | g12275 | g12275.t4 | exon | g12275.t4.exon1 | 22114133 | 22114938 |
| chr_1 | g12275 | g12275.t4 | cds | g12275.t4.CDS1 | 22114133 | 22114888 |
| chr_1 | g12275 | g12275.t4 | exon | g12275.t4.exon2 | 22115009 | 22115248 |
| chr_1 | g12275 | g12275.t4 | exon | g12275.t4.exon3 | 22115299 | 22115579 |
| chr_1 | g12275 | g12275.t4 | TSS | g12275.t4 | 22115633 | 22115633 |
Sequences
>g12275.t4 Gene=g12275 Length=1327
ATGAATTTTAAATCAAGTATTACAATATTTCTAGTGTTTCTAATTAGTTTAACTTCTTGT
AATTCAATTGATCAAGAAGTAGAAAATAAAAACGTAGACAGAACGATTGATATAACATCA
CAATTGGTAAAAATTACATACAAGATTACACTTGAGCACAAGTCTAAGAAACCGATTACA
AATTATGTATTTGTACTTCCCATCAATGAATGCAACAAAGTATCAATTGTTACTGCTCGT
GATGCTGCTAAGAAGGAACTCAAATTGACAACATCAAAGAATAATTTATGTTGAAGCTGT
ATTTTCAAAAGCTCTTGAGCCATATCCAGTTGCTATTCCACAATCAGAACGTCAATTGGT
TCGCTACTTTGGAAGTGCATATTTCTATTCGCCATATAAAACTTTGTCTCAAAAGACCAC
AATTCATCTTGCATCAAAAAGCGTTGAGAGTTATACTCAACTTAAACCATCATCGCAAAA
TGATGCTCAAATTTTCTATGGCCCTTATGAAAACATTGCACCAAATACAAAGCATGAAAT
AGTTGTTCATTACGAAAATAACACACCATTTATGACAATTACAAGATTAGAGCGCACAAT
TGAAATCTCACTTTGGGGCAATGTTGCTGTTGAAGAAACAATTGATATCATTCATTCTGG
CGCTTTGCTTAAAGGTTCATTCTCTCGATATGATTATCAAAAAGATTCTCGAAGTGGACC
AGCAAGTGTAAAATCATACAAAACAATTCTACCAGCATCAGCAACTGGTGTATATTATCG
CGATATTAATGGAAATATTTCAACATCGGCGATGAGAATTTTAAAGGATTCAGTTGAACT
TGATTTGAGACCACGTTTCCCTCTCTTTGGTGGTTGGCGTACACATTATACTGTTGGTTA
CAATGTTCCAAGCTTTGAATATTTATTCCAAAGTGGAGATAATTACATGTTGAAAATGAG
AGTTTTAGATCACGTTTTTGATGATATGATTGTTGATGAACTCATTACAAAAGTTATTCT
GCCTGAAGGAAGCAAAAATATTAAGCTTGTTACACCATATACAGTAGAACGCAAGCCTGA
TTCACTTCATTTTACTTATTTGGATATCACAGGACGTCCAGTCATTACATTCCGCAAAAC
TAATTTAGTTGAGAATCATATCAACGATTTCAATCTTAAGTTCAATTTTTCACGCATCAT
GATGCTTCAAGAACCATTGCTAGTCGTTGTGTTCTTTTATCTCATCTTTTTATTTGTAAT
CATTTGGACACGACTTGATTTCTCAATCATCAAGGAACGCGAGTCGCAACATTTGCATAA
AGACTAA
>g12275.t4 Gene=g12275 Length=251
MTITRLERTIEISLWGNVAVEETIDIIHSGALLKGSFSRYDYQKDSRSGPASVKSYKTIL
PASATGVYYRDINGNISTSAMRILKDSVELDLRPRFPLFGGWRTHYTVGYNVPSFEYLFQ
SGDNYMLKMRVLDHVFDDMIVDELITKVILPEGSKNIKLVTPYTVERKPDSLHFTYLDIT
GRPVITFRKTNLVENHINDFNLKFNFSRIMMLQEPLLVVVFFYLIFLFVIIWTRLDFSII
KERESQHLHKD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g12275.t4 | PANTHER | PTHR21049:SF0 | DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE SUBUNIT 1 | 1 | 245 | 7.3E-108 |
| 3 | g12275.t4 | PANTHER | PTHR21049 | RIBOPHORIN I | 1 | 245 | 7.3E-108 |
| 1 | g12275.t4 | Pfam | PF04597 | Ribophorin I | 2 | 231 | 1.0E-84 |
| 5 | g12275.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 215 | - |
| 7 | g12275.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 216 | 235 | - |
| 6 | g12275.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 236 | 251 | - |
| 4 | g12275.t4 | 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. There were no conditions that were differentially expressed