General information for g3061.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Heparan sulfate glucosamine 3-O-sulfotransferase 3A1.
Parent gene
- The parent gene g3061 is located on chr_3: 22389633..22390927 (- 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 | g3061 | g3061.t1 | isoform | g3061.t1 | 22389633 | 22390927 |
| chr_3 | g3061 | g3061.t1 | exon | g3061.t1.exon1 | 22389633 | 22389746 |
| chr_3 | g3061 | g3061.t1 | cds | g3061.t1.CDS1 | 22389633 | 22389746 |
| chr_3 | g3061 | g3061.t1 | exon | g3061.t1.exon2 | 22389801 | 22390194 |
| chr_3 | g3061 | g3061.t1 | cds | g3061.t1.CDS2 | 22389801 | 22390194 |
| chr_3 | g3061 | g3061.t1 | exon | g3061.t1.exon3 | 22390255 | 22390432 |
| chr_3 | g3061 | g3061.t1 | cds | g3061.t1.CDS3 | 22390255 | 22390432 |
| chr_3 | g3061 | g3061.t1 | exon | g3061.t1.exon4 | 22390483 | 22390732 |
| chr_3 | g3061 | g3061.t1 | cds | g3061.t1.CDS4 | 22390483 | 22390732 |
| chr_3 | g3061 | g3061.t1 | exon | g3061.t1.exon5 | 22390784 | 22390927 |
| chr_3 | g3061 | g3061.t1 | cds | g3061.t1.CDS5 | 22390784 | 22390927 |
| chr_3 | g3061 | g3061.t1 | TSS | g3061.t1 | 22391069 | 22391069 |
| chr_3 | g3061 | g3061.t1 | TTS | g3061.t1 | NA | NA |
Sequences
>g3061.t1 Gene=g3061 Length=1080
ATGTTGATTCAAAATGTTAAAGTTATAAAAATCTCTAATCGCACCATCTTGTTTCTGACG
ATTAGTACTTCAATTACTCTTCTATATTTCTTTTATTTATTCAATTCATGCATAATTAAC
AGTTTTCATAAGGCATTCCGAAGGAATTTGCCAAAGAATATCATAAACACCACAATATCA
ACAAACTCTGACGAACAAACACAATTAATACTTGGAAGTGTTGTGAGAATTTTATCGTTG
ACCGATGATGATAACAGAAATGAAAGTGCTTTTAAATATCGATTAGTTAATCCGCAAAAT
TTATCAGTGCGAAGATTTCCTGATGTTTTGATTATTGGAGTTAAAAAAAGCGGGACTAGA
GCACTTTTGGAATTTATTCGACTTCATCCAGATGTTAGAGCAGCTGGAAATGAAATTCAT
TTTTTCGATAGACATTATTCATTTGGTCTAAATTGGTATCGCAAAAAAATGCCACCAACA
ATGTCTGGTCAGCTCACAATGGAAAAGACACCATCATATTTTATAACTTCTAGTGTACCC
GGAAGAGTTTTTAAATTTAATCCTAAAATTAAGCTTCTTTTGGTAGTAAGAAATCCAGTA
ACAAGAGCTATTAGTGACTATACACAAGCATTTAGTAAGAAAAAAGACATGAAAAAGTTT
GAAGAACTTGTATTTGTAAATGGTTCATATGAAGTTGTTGATACAACTTATGGAGCTATA
AAAATTGGAGTTTATGCAAAATATCTAGAGAGATGGCTCAAATATTTTCCGCTCAGTCAA
TTTCTCTTCATTAGCGGTGAACGACTTATTTCAGATCCAGCAGCAGAACTCTATAGAGTT
CAAGATTTTCTTAATCTAAAGCGTGTGATAACAGAAAAGCACTTTTATTTTAATTCCACC
AAAGGATTTCCTTGTCTGCTAAAATCTGAAAGTAAAGCGACTCCACATTGTTTAGGCAAG
ACAAAGGGTCGCATTCATCCAGTTATAGATGACCAAGCAATTGAACGATTGAATGAATTT
TATCGACCTTTCAATCAGAAATTTTACCAAATGACATTAATCAATTTTGGCTGGTCGTAA
>g3061.t1 Gene=g3061 Length=359
MLIQNVKVIKISNRTILFLTISTSITLLYFFYLFNSCIINSFHKAFRRNLPKNIINTTIS
TNSDEQTQLILGSVVRILSLTDDDNRNESAFKYRLVNPQNLSVRRFPDVLIIGVKKSGTR
ALLEFIRLHPDVRAAGNEIHFFDRHYSFGLNWYRKKMPPTMSGQLTMEKTPSYFITSSVP
GRVFKFNPKIKLLLVVRNPVTRAISDYTQAFSKKKDMKKFEELVFVNGSYEVVDTTYGAI
KIGVYAKYLERWLKYFPLSQFLFISGERLISDPAAELYRVQDFLNLKRVITEKHFYFNST
KGFPCLLKSESKATPHCLGKTKGRIHPVIDDQAIERLNEFYRPFNQKFYQMTLINFGWS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3061.t1 | Gene3D | G3DSA:3.40.50.300 | - | 94 | 359 | 6.1E-101 |
| 2 | g3061.t1 | PANTHER | PTHR10605:SF62 | HEPARAN SULFATE GLUCOSAMINE 3-O-SULFOTRANSFERASE 6 | 13 | 358 | 9.5E-131 |
| 3 | g3061.t1 | PANTHER | PTHR10605 | HEPARAN SULFATE SULFOTRANSFERASE | 13 | 358 | 9.5E-131 |
| 1 | g3061.t1 | Pfam | PF00685 | Sulfotransferase domain | 107 | 350 | 7.2E-42 |
| 7 | g3061.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 15 | - |
| 9 | g3061.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 16 | 34 | - |
| 8 | g3061.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 35 | 359 | - |
| 5 | g3061.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 100 | 358 | 5.31E-77 |
| 4 | g3061.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 17 | 39 | - |
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 K07809 ([heparan sulfate]-glucosamine 3-sulfotransferase 3)
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. There were no conditions that were differentially expressed