General information for g3728.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Heparan sulfate glucosamine 3-O-sulfotransferase 5.
Parent gene
- The parent gene g3728 is located on chr_3: 27682620..27688768 (+ 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_3 | g3728 | g3728.t1 | TSS | g3728.t1 | 27680770 | 27680770 |
| chr_3 | g3728 | g3728.t1 | isoform | g3728.t1 | 27681219 | 27682620 |
| chr_3 | g3728 | g3728.t1 | exon | g3728.t1.exon1 | 27681219 | 27681284 |
| chr_3 | g3728 | g3728.t1 | cds | g3728.t1.CDS1 | 27681219 | 27681284 |
| chr_3 | g3728 | g3728.t1 | exon | g3728.t1.exon2 | 27681389 | 27681508 |
| chr_3 | g3728 | g3728.t1 | cds | g3728.t1.CDS2 | 27681389 | 27681508 |
| chr_3 | g3728 | g3728.t1 | exon | g3728.t1.exon3 | 27681579 | 27681794 |
| chr_3 | g3728 | g3728.t1 | cds | g3728.t1.CDS3 | 27681579 | 27681794 |
| chr_3 | g3728 | g3728.t1 | exon | g3728.t1.exon4 | 27681850 | 27682019 |
| chr_3 | g3728 | g3728.t1 | cds | g3728.t1.CDS4 | 27681850 | 27682019 |
| chr_3 | g3728 | g3728.t1 | exon | g3728.t1.exon5 | 27682078 | 27682166 |
| chr_3 | g3728 | g3728.t1 | cds | g3728.t1.CDS5 | 27682078 | 27682166 |
| chr_3 | g3728 | g3728.t1 | exon | g3728.t1.exon6 | 27682226 | 27682540 |
| chr_3 | g3728 | g3728.t1 | cds | g3728.t1.CDS6 | 27682226 | 27682540 |
| chr_3 | g3728 | g3728.t1 | exon | g3728.t1.exon7 | 27682604 | 27682620 |
| chr_3 | g3728 | g3728.t1 | cds | g3728.t1.CDS7 | 27682604 | 27682620 |
| chr_3 | g3728 | g3728.t1 | TTS | g3728.t1 | 27682888 | 27682888 |
Sequences
>g3728.t1 Gene=g3728 Length=993
ATGTTAATATCGTTATTCTTCACATTCCATGTATTGTTGTACGATTCGACTATTTACTCC
ATTCAGGCAGCAACAATAATTTCAAGTAATAAGATTATACCAACGATAGCACCGCGTTTT
AAGAAACAAATGAAATTCTCTCCATATCACATACATTTTCCAAAAACTAGTAGAAAACTA
CCACAATGCTTAATTATTGGTGTAAGAAAATGTGGTACGCGTGCATTACTGGAAATGTTG
AATCTTCATCCAAGAATTCAAAAAGCGGCAGGAGAAGTTCATTTCTTCGATCGTGATGAG
AATTATGAGCGTGGTTTAGAATGGTATCGTAAGAAAATGCCTCATAGTTTTAGAGGACAA
ATTACGATTGAAAAAAGTCCAAGTTACTTTGTTACTCCTGAAGTTGCTGAAAGAGTTCGA
GCCATGAATTCATCAATTAAATTATTGTTATTGGTTAGGGAGCCGGTTACAAGAGCAATA
TCTGATTTTACTCAACTACGTAGTCATTCTGCTACTGCGGTTCTTCCTACAAATCAACTT
TCGCAAGCATCATCTTCATCTCCAAATACTAAATCGTTTGAAGAATTAGCTATTTTTGCT
AATGGAACAATCAATATTAATTATCGTCCACTCGCATTGTCAATCTATCATCAATATACA
TTAAGATGGCTTGAAATCTTCTCGAGATCACAGATTTTAGTAATCAACGGAGACCAGCTG
ATAACCGATCCGATTTCTCAAATAAATAGAGTTCAAGACTTTTTAGGAATTGAACGACGA
ATAAATCATGAGAACTTTTATTTCAATAAAACGAAAGGTTTTTACTGCCTTCGTACCATG
GCGGGTGATAAAAAATGTTTAAAAGAGACAAAAGGAAGAATGCATCCGAAGGTCAATGAA
AAAAGCGTTTCAATTTTAAGAAAATTTTTCGTTGAACACAACCAAAAATTTTATGATCTT
ATTGGAGAAGATTTAGGATGGCCAGAAGAGTAA
>g3728.t1 Gene=g3728 Length=330
MLISLFFTFHVLLYDSTIYSIQAATIISSNKIIPTIAPRFKKQMKFSPYHIHFPKTSRKL
PQCLIIGVRKCGTRALLEMLNLHPRIQKAAGEVHFFDRDENYERGLEWYRKKMPHSFRGQ
ITIEKSPSYFVTPEVAERVRAMNSSIKLLLLVREPVTRAISDFTQLRSHSATAVLPTNQL
SQASSSSPNTKSFEELAIFANGTININYRPLALSIYHQYTLRWLEIFSRSQILVINGDQL
ITDPISQINRVQDFLGIERRINHENFYFNKTKGFYCLRTMAGDKKCLKETKGRMHPKVNE
KSVSILRKFFVEHNQKFYDLIGEDLGWPEE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g3728.t1 | Gene3D | G3DSA:3.40.50.300 | - | 49 | 328 | 7.9E-92 |
| 2 | g3728.t1 | PANTHER | PTHR10605 | HEPARAN SULFATE SULFOTRANSFERASE | 41 | 328 | 1.2E-104 |
| 1 | g3728.t1 | Pfam | PF00685 | Sulfotransferase domain | 61 | 313 | 2.3E-36 |
| 7 | g3728.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 23 | - |
| 8 | g3728.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 1 | - |
| 9 | g3728.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 2 | 13 | - |
| 10 | g3728.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 23 | - |
| 6 | g3728.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 24 | 330 | - |
| 3 | g3728.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 42 | 328 | 2.66E-74 |
| 4 | g3728.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 23 | - |
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 |
KEGG
Orthology
- This transcript has been annotated with K08104 ([heparan sulfate]-glucosamine 3-sulfotransferase 5)
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.
