General information for g17420.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Sulfotransferase 1 family member D1.
Parent gene
- The parent gene g17420 is located on chr_4: 13473678..13474807 (+ 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 | g17420 | g17420.t1 | isoform | g17420.t1 | 13473678 | 13474807 |
| chr_4 | g17420 | g17420.t1 | exon | g17420.t1.exon1 | 13473678 | 13473961 |
| chr_4 | g17420 | g17420.t1 | cds | g17420.t1.CDS1 | 13473678 | 13473961 |
| chr_4 | g17420 | g17420.t1 | exon | g17420.t1.exon2 | 13474028 | 13474485 |
| chr_4 | g17420 | g17420.t1 | cds | g17420.t1.CDS2 | 13474028 | 13474485 |
| chr_4 | g17420 | g17420.t1 | exon | g17420.t1.exon3 | 13474620 | 13474807 |
| chr_4 | g17420 | g17420.t1 | cds | g17420.t1.CDS3 | 13474620 | 13474807 |
| chr_4 | g17420 | g17420.t1 | TTS | g17420.t1 | 13474839 | 13474839 |
| chr_4 | g17420 | g17420.t1 | TSS | g17420.t1 | NA | NA |
Sequences
>g17420.t1 Gene=g17420 Length=930
ATGTCTTTAAATACATCAAAATTAGATTTGTTTTACTCTTCTTCATCTGTAAAAGCAGAA
GGTGAAAAATGGAAAAAATTTCCATCTTGTGTTTTGCTAAATATGGCAATTGAAAATTTG
AGTCAAATTAAAAATTTAAAAATTTATCCTGATGATATTTTCCTTTGTGGATTTCCAAGA
AGTGGAACAACGTTAATGCAGGAAATGATTTGGTTAATTGTAAATGGTTTTAATTATGAA
AAGGCAAAAAGTGAATTGAAGGACTTACGGTTTCCATCACTTGAAACGATTGAAATATTT
AAAAAAATTCACGTTGAATTATCAAATTTTCACATTGACACCCTGCAACGACCAAGAACG
ATTAAAACTCATCTTCCAGTTCAATTTCTACCTGATGATTATTGGAAAATTTATCCTAAA
ACAATTTACATTTCAAGAGATCCACGCGATGTCGTGATGTCAACTTTTAATATAAGCAAA
AATATATTTAAGGAAAAATCTTCAATGGAGGAATTTCTTCAAAATTTTCTGAATGATAAA
ATTGTTTTTTGTCCTTATAGAGAGCATTGCATAGACTTTTGGAATATTCCAGAGAAAGAT
AATATCTTATATTTAACTTATGAATGGGTTAATCAAAATATTGCAGAAACAATTTTGAAA
GTTGTAAAATTTTTAGGAAAAGAAATTTCTGAAGAAAATTTAAAGCTATTAAAGGAGCAT
TTGAAAATTGAAAATATGAGAAAAAATGATTCATGCAACAGGAAGGAACTTTTCAAGGAA
TTAAATGTAAATAGCAATCCAGAAGATTTTATTCGGAAGGGAAAATCTGGAAATTACAAA
GATGAAATGCCAGAAGAATTCATTGAAAAGTTTAAAATTTGGATGGAAGAATTTAAAGAA
ATGAAAAGTTCTTTTGAAAATAAAAATTAA
>g17420.t1 Gene=g17420 Length=309
MSLNTSKLDLFYSSSSVKAEGEKWKKFPSCVLLNMAIENLSQIKNLKIYPDDIFLCGFPR
SGTTLMQEMIWLIVNGFNYEKAKSELKDLRFPSLETIEIFKKIHVELSNFHIDTLQRPRT
IKTHLPVQFLPDDYWKIYPKTIYISRDPRDVVMSTFNISKNIFKEKSSMEEFLQNFLNDK
IVFCPYREHCIDFWNIPEKDNILYLTYEWVNQNIAETILKVVKFLGKEISEENLKLLKEH
LKIENMRKNDSCNRKELFKELNVNSNPEDFIRKGKSGNYKDEMPEEFIEKFKIWMEEFKE
MKSSFENKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g17420.t1 | Coils | Coil | Coil | 295 | 309 | - |
| 5 | g17420.t1 | Gene3D | G3DSA:3.40.50.300 | - | 5 | 308 | 4.0E-74 |
| 2 | g17420.t1 | PANTHER | PTHR11783 | SULFOTRANSFERASE SULT | 37 | 297 | 2.2E-74 |
| 3 | g17420.t1 | PANTHER | PTHR11783:SF180 | GH11818P-RELATED | 37 | 297 | 2.2E-74 |
| 1 | g17420.t1 | Pfam | PF00685 | Sulfotransferase domain | 50 | 302 | 3.3E-56 |
| 4 | g17420.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 24 | 298 | 2.88E-64 |
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 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. There were no conditions that were differentially expressed