General information for g16273.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Heparin sulfate O-sulfotransferase.
Parent gene
- The parent gene g16273 is located on chr_4: 8939288..8939760 (- 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 | g16273 | g16273.t1 | isoform | g16273.t1 | 8939288 | 8939760 |
| chr_4 | g16273 | g16273.t1 | exon | g16273.t1.exon1 | 8939288 | 8939589 |
| chr_4 | g16273 | g16273.t1 | cds | g16273.t1.CDS1 | 8939288 | 8939589 |
| chr_4 | g16273 | g16273.t1 | exon | g16273.t1.exon2 | 8939646 | 8939760 |
| chr_4 | g16273 | g16273.t1 | cds | g16273.t1.CDS2 | 8939646 | 8939760 |
| chr_4 | g16273 | g16273.t1 | TSS | g16273.t1 | 8939933 | 8939933 |
| chr_4 | g16273 | g16273.t1 | TTS | g16273.t1 | NA | NA |
Sequences
>g16273.t1 Gene=g16273 Length=417
ATGCTGCTGATAAATCGAAAAATTTTCCTCGTTTTGTTAATTTTATCTTGTTTTGTTTTA
ATTTTTTTTTACATTTGGTCATCACTAAATTTTAAAGAGCGAATAATTAAACAAGATAAT
TTCCTTCCACTTTTCAATACTCAAAGCAGTAATGTCAACAACGCCCACAATTTCGATGAG
AATCTCGTTGTGATTTATAATCGTGTGCCAAAAACGGCATCGACAAGTTTTGTGAATTTA
ACTTATGGTTTATGCAAGAAAAATCAATTTCATGTGCTGCATATTAATGTCACTGGCAAT
AATCATGTGTTGTCATTGCCGAATCAGATGAAATTTGTGAGAAATATCACTGGATGGACA
GCAATGAAACCTGCTTTCTATCATGGTCATCTGGCTTTTTTGGATTTTTCTAAGTGA
>g16273.t1 Gene=g16273 Length=138
MLLINRKIFLVLLILSCFVLIFFYIWSSLNFKERIIKQDNFLPLFNTQSSNVNNAHNFDE
NLVVIYNRVPKTASTSFVNLTYGLCKKNQFHVLHINVTGNNHVLSLPNQMKFVRNITGWT
AMKPAFYHGHLAFLDFSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g16273.t1 | Gene3D | G3DSA:3.40.50.300 | - | 57 | 138 | 3.3E-25 |
| 2 | g16273.t1 | PANTHER | PTHR12129:SF13 | HEPARAN SULFATE 2-O-SULFOTRANSFERASE 1B | 27 | 138 | 5.9E-34 |
| 3 | g16273.t1 | PANTHER | PTHR12129 | HEPARAN SULFATE 2-O-SULFOTRANSFERASE | 27 | 138 | 5.9E-34 |
| 1 | g16273.t1 | Pfam | PF03567 | Sulfotransferase family | 57 | 137 | 2.8E-7 |
| 6 | g16273.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 6 | - |
| 8 | g16273.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 26 | - |
| 7 | g16273.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 27 | 138 | - |
| 4 | g16273.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
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 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.
