General information for g16271.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Heparin sulfate O-sulfotransferase.
Parent gene
- The parent gene g16271 is located on chr_4: 8933769..8934313 (- 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_4 | g16271 | g16271.t1 | TTS | g16271.t1 | 8932926 | 8932926 |
| chr_4 | g16271 | g16271.t1 | isoform | g16271.t1 | 8933769 | 8934313 |
| chr_4 | g16271 | g16271.t1 | exon | g16271.t1.exon1 | 8933769 | 8934097 |
| chr_4 | g16271 | g16271.t1 | cds | g16271.t1.CDS1 | 8933769 | 8934097 |
| chr_4 | g16271 | g16271.t1 | exon | g16271.t1.exon2 | 8934160 | 8934313 |
| chr_4 | g16271 | g16271.t1 | cds | g16271.t1.CDS2 | 8934160 | 8934313 |
| chr_4 | g16271 | g16271.t1 | TSS | g16271.t1 | NA | NA |
Sequences
>g16271.t1 Gene=g16271 Length=483
ATGACATTCGATGAGTGCGTAAAGCAGAAAAAACCAGACTGTGATCCAAAAAATATGTGG
CTACAAATTCCATTCTTTTGTGGTCATCATAGTGAATGTTTTGAACCTGGAAGTCGATGG
GCTTTAGAGCAGGCAAAAAGAAATTTAGTCAATGAATATTTTCTGGTCGGTCTCACAGAA
GAACTCACAGATTTTGTAGAAATGCTTGAACTTTCACTTCCAAGAATGTTTCGTGGTGCT
CTCGAAAATTTCACAAAATCAAATAAATCACATTTAAGAAGGACAAAAGGCAAAGTTGAC
CCATTGCCAGTAACTGAGGCTAAAATAAAAGAGTCAAAAATTTGGCAAATGGAAAATGAA
CTTTATTATTTTGCACGAGATCATTTTTATTTTTTAAAAAATAAGCATGTGATGAGTAAT
GGAAAGCAGCAGGATTTTATGTATGAAAAAATAAAACCAGTGATGCCTGTTGGACAGAAT
TAA
>g16271.t1 Gene=g16271 Length=160
MTFDECVKQKKPDCDPKNMWLQIPFFCGHHSECFEPGSRWALEQAKRNLVNEYFLVGLTE
ELTDFVEMLELSLPRMFRGALENFTKSNKSHLRRTKGKVDPLPVTEAKIKESKIWQMENE
LYYFARDHFYFLKNKHVMSNGKQQDFMYEKIKPVMPVGQN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g16271.t1 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 155 | 0 |
| 2 | g16271.t1 | PANTHER | PTHR12129:SF13 | HEPARAN SULFATE 2-O-SULFOTRANSFERASE 1B | 2 | 153 | 0 |
| 3 | g16271.t1 | PANTHER | PTHR12129 | HEPARAN SULFATE 2-O-SULFOTRANSFERASE | 2 | 153 | 0 |
| 1 | g16271.t1 | Pfam | PF03567 | Sulfotransferase family | 2 | 131 | 0 |
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:0008146 | sulfotransferase activity | MF |
| GO:0016021 | integral component of membrane | CC |
KEGG
Orthology
- This transcript has been annotated with K02513 (heparan sulfate 2-O-sulfotransferase HS2ST1 [EC:2.8.2.-])
Pathway
- This transcript belongs to the following pathways
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.
