General information for g13675.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dolichyl-diphosphooligosaccharide–protein glycosyltransferase 48 kDa subunit.
Parent gene
- The parent gene g13675 is located on chr_1: 31501155..31506482 (- 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 | g13675 | g13675.t6 | TTS | g13675.t6 | 31500856 | 31500856 |
| chr_1 | g13675 | g13675.t6 | isoform | g13675.t6 | 31500973 | 31502322 |
| chr_1 | g13675 | g13675.t6 | exon | g13675.t6.exon1 | 31500973 | 31502162 |
| chr_1 | g13675 | g13675.t6 | cds | g13675.t6.CDS1 | 31500973 | 31501557 |
| chr_1 | g13675 | g13675.t6 | exon | g13675.t6.exon2 | 31502224 | 31502322 |
| chr_1 | g13675 | g13675.t6 | TSS | g13675.t6 | 31502399 | 31502399 |
Sequences
>g13675.t6 Gene=g13675 Length=1289
CTTCTTCAGGCTATGCAGATCAGAAAAAGGATACTCTAGTTTTGTTAGATAACTTGGCTA
CAAGAGAAACTCATTCGATTTTCTTTAAAAATTTACAAGATCGTGAATTTAAGCTCACAT
TTAAACTAGCTGATGACTCAAATCTTGTCTTATCTAGATATGGAGAGTATTTGTATCAAA
ATCTCATCATTTTTGCACCATCAGTTGAAGAATTTGGTGGATCAATTTCAGTGGAAGCGA
TTACTCAATTCATCGATGACGGAGGAAATGTATTAGTCGCAGCTTCATCAACTTCCGGAG
AAGCTATTCGTGAACTTGCATCAGAAGTTGGTTTTGAGATTGATGAAGAAAATGCAGCTG
TTATTGATCATTTGAACTATGACCAACTTCTCGATTCTGGTGATCACACAACGATCGTTG
CATCGCCTAAAAATTTGATTGATTCAGAAATTATTGTCGGTAGCAAAAACATCAATCCGC
TTTTATTCAAAGGAACTGGAATTTTGGCTGATCGTGAAAATCAACTCGTACTTCCTCTTC
TCACTGGTGATGCCACTGCATACAGTTATATTCCTGATTCGCCTATTAAAGAATATCCAC
ATGCTGTCGGTAAAGGAACAATTTTAATTGCAGCTCTTCAAGCACGCAACAATGCTCGTG
TTGTTTTCTCTGGCTCACTTTACTTCTTTTCTGATGATGCCATTATGTCACAAATTAAAA
AAGTTGGTGATAATCAAGTGCATGACAAATCTGGTAATCTTAATGTTATTAACGCTATCA
GCAAATGGGTATTTAAAGAAGCAGGTCAAATTCGTGTCAAATCAGTCAGTCATCATAAAG
ATGGAGAGAAACAAGCTCCTGCTAGCTATACAATCACTGATCCTGTTGTTTATACAATCG
AAGTTGAACAATTGATTGATGGAAAATGGAAACCATTTGTTGCTAGTGATATTCAAGTTG
AATTTGTTCGCATTGATCCATTTGTGAGACTCACATTGAAATCAATTGGCGGTGGAAAAT
ATCAATCTAAATTCAAAATTCCTGATGTGTATGGAGTTTATCAATTCAAAGTAGAATATG
ATCGAGTTGGATTCACAAGACTTTATAGTACAACACAAGTTTCAGTGAGACCGCTACAGC
ATACTCAATATGAACGTTTCATTCCGAGTGCTTATCCATATTATGCTAGCGCTTTCTCAA
TGATGTTTGGTGTTTTCATCTTTTCATTTGTATTTCTTTATTACAAGGATAAGCCAGAAA
AAGCCGAAGTTGAAAAGAAAACTAATTAA
>g13675.t6 Gene=g13675 Length=194
MSQIKKVGDNQVHDKSGNLNVINAISKWVFKEAGQIRVKSVSHHKDGEKQAPASYTITDP
VVYTIEVEQLIDGKWKPFVASDIQVEFVRIDPFVRLTLKSIGGGKYQSKFKIPDVYGVYQ
FKVEYDRVGFTRLYSTTQVSVRPLQHTQYERFIPSAYPYYASAFSMMFGVFIFSFVFLYY
KDKPEKAEVEKKTN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g13675.t6 | PANTHER | PTHR10830:SF0 | DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE 48 KDA SUBUNIT | 2 | 187 | 3.3E-74 |
| 3 | g13675.t6 | PANTHER | PTHR10830 | DOLICHYL-DIPHOSPHOOLIGOSACCHARIDE–PROTEIN GLYCOSYLTRANSFERASE 48 KDA SUBUNIT | 2 | 187 | 3.3E-74 |
| 1 | g13675.t6 | Pfam | PF03345 | Oligosaccharyltransferase 48 kDa subunit beta | 12 | 186 | 1.0E-71 |
| 6 | g13675.t6 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 156 | - |
| 7 | g13675.t6 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 157 | 180 | - |
| 5 | g13675.t6 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 181 | 194 | - |
| 4 | g13675.t6 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 157 | 179 | - |
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:0018279 | protein N-linked glycosylation via asparagine | BP |
| GO:0005789 | endoplasmic reticulum 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.
