General information for g3819.t11
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Heparan-sulfate 6-O-sulfotransferase 1.
Parent gene
- The parent gene g3819 is located on chr_3: 28178009..28179647 (- 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 | g3819 | g3819.t11 | TTS | g3819.t11 | 28177255 | 28177255 |
| chr_3 | g3819 | g3819.t11 | isoform | g3819.t11 | 28178009 | 28179440 |
| chr_3 | g3819 | g3819.t11 | exon | g3819.t11.exon1 | 28178009 | 28178059 |
| chr_3 | g3819 | g3819.t11 | cds | g3819.t11.CDS1 | 28178010 | 28178059 |
| chr_3 | g3819 | g3819.t11 | exon | g3819.t11.exon2 | 28178127 | 28178218 |
| chr_3 | g3819 | g3819.t11 | cds | g3819.t11.CDS2 | 28178127 | 28178218 |
| chr_3 | g3819 | g3819.t11 | exon | g3819.t11.exon3 | 28178285 | 28178435 |
| chr_3 | g3819 | g3819.t11 | cds | g3819.t11.CDS3 | 28178285 | 28178435 |
| chr_3 | g3819 | g3819.t11 | exon | g3819.t11.exon4 | 28178505 | 28178595 |
| chr_3 | g3819 | g3819.t11 | cds | g3819.t11.CDS4 | 28178505 | 28178595 |
| chr_3 | g3819 | g3819.t11 | exon | g3819.t11.exon5 | 28178661 | 28178711 |
| chr_3 | g3819 | g3819.t11 | cds | g3819.t11.CDS5 | 28178661 | 28178711 |
| chr_3 | g3819 | g3819.t11 | exon | g3819.t11.exon6 | 28178872 | 28178892 |
| chr_3 | g3819 | g3819.t11 | cds | g3819.t11.CDS6 | 28178872 | 28178892 |
| chr_3 | g3819 | g3819.t11 | exon | g3819.t11.exon7 | 28179000 | 28179440 |
| chr_3 | g3819 | g3819.t11 | cds | g3819.t11.CDS7 | 28179000 | 28179440 |
| chr_3 | g3819 | g3819.t11 | TSS | g3819.t11 | 28179647 | 28179647 |
Sequences
>g3819.t11 Gene=g3819 Length=898
ATGTCAGCGATAGAAGTTAAGGCAAAGTTAAAATATGAAAAATGTGAGAATAGGCAGCAA
AGTAATGTTTCAAAGTCAGATTTGGTTTTTCTTATCGATAATCATAGTCGTAATGATGCC
ATAAAAATGGACAATTTAAAGAAGAGGCGCAAACGTTTAGTGATATTTTTAATTATCGTA
GTGCTGTCATTGTTCTCAATAGTACTTTTTGGAAGAAGTTTAAATAGTGAGGAAGTTTGT
GCATTATCGCTTTCGTTAACGAGAAAAAAATTATTTAATAACGATAATCACATCAGCAAC
AATAATATCAATAATCACAATAACAGTAGTAGCCTTAATGGTAAAAGTACCAGTAGCCAT
CTCCATCTCCTTTTAAGTTACGATGATGTCCTCAATGATGATATACAGAATAAATTTGAT
ATAAATTCAAATGATGTTATGGTCTTTCTACACATTCAGAAGACCGGTGGAACTTCGTTC
GGAAAGCATTTAGTAAGAGATTTAGATTTAAAGAGAAAATGCACATGCCAGAGAAAGAAA
AAACGATGTTACTGCTTTAGACCAAATAGAAATGAAAATTGGCTATTTAGTCGATACTCG
ACAGGTTGGAAGTGTGGCTTGCATGCCGATTGGACTGAACTCATTTCTTGTGTTGACCAA
GAGTTTGATAAAAATGAGGGTGAGACAACGAAAAGAAGATACTTTTATATTACACTCTTA
AGATCGCCTATCGCTCGATATCTGTCAGAATATAGACATGTACAACGAGGAGCAACATGG
AAAAATTCTAGACATTTTTGTCTTGGTCGTCAAGCGACGAGTGAAGAACTTCCGCCGTGT
TACACAGGAGACGACTGGATGGATGTAACTTTGGACGAGTTTGCAGATTGTGAAAGTA
>g3819.t11 Gene=g3819 Length=299
MSAIEVKAKLKYEKCENRQQSNVSKSDLVFLIDNHSRNDAIKMDNLKKRRKRLVIFLIIV
VLSLFSIVLFGRSLNSEEVCALSLSLTRKKLFNNDNHISNNNINNHNNSSSLNGKSTSSH
LHLLLSYDDVLNDDIQNKFDINSNDVMVFLHIQKTGGTSFGKHLVRDLDLKRKCTCQRKK
KRCYCFRPNRNENWLFSRYSTGWKCGLHADWTELISCVDQEFDKNEGETTKRRYFYITLL
RSPIARYLSEYRHVQRGATWKNSRHFCLGRQATSEELPPCYTGDDWMDVTLDEFADCES
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3819.t11 | Gene3D | G3DSA:3.40.50.300 | - | 140 | 289 | 1.9E-5 |
| 2 | g3819.t11 | PANTHER | PTHR12812 | HEPARAN SULFATE 6-O-SULFOTRANSFERASE 3 | 55 | 297 | 4.1E-71 |
| 3 | g3819.t11 | PANTHER | PTHR12812:SF6 | HEPARAN-SULFATE 6-O-SULFOTRANSFERASE 2 | 55 | 297 | 4.1E-71 |
| 1 | g3819.t11 | Pfam | PF03567 | Sulfotransferase family | 138 | 297 | 1.1E-42 |
| 7 | g3819.t11 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 52 | - |
| 9 | g3819.t11 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 53 | 71 | - |
| 8 | g3819.t11 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 72 | 299 | - |
| 5 | g3819.t11 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 134 | 287 | 7.67E-6 |
| 4 | g3819.t11 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 53 | 70 | - |
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.
