General information for g13963.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine palmitoyltransferase 1.
Parent gene
- The parent gene g13963 is located on chr_1: 33643355..33648109 (+ 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_1 | g13963 | g13963.t4 | isoform | g13963.t4 | 33642725 | 33643355 |
| chr_1 | g13963 | g13963.t4 | exon | g13963.t4.exon1 | 33642725 | 33643133 |
| chr_1 | g13963 | g13963.t4 | cds | g13963.t4.CDS1 | 33642726 | 33643133 |
| chr_1 | g13963 | g13963.t4 | exon | g13963.t4.exon2 | 33643194 | 33643355 |
| chr_1 | g13963 | g13963.t4 | cds | g13963.t4.CDS2 | 33643194 | 33643355 |
| chr_1 | g13963 | g13963.t4 | TTS | g13963.t4 | 33643516 | 33643516 |
| chr_1 | g13963 | g13963.t4 | TSS | g13963.t4 | NA | NA |
Sequences
>g13963.t4 Gene=g13963 Length=571
AATAGGACAGCATGGAAGAGGTATAACTGAATTGCTATGTGTAGACAAATCAGAAGTTGA
TCTTATCTCTGCATCACTTGAGAATGCAGTTGAATCTATCGGAGGATTTTGCGTCGGTTC
TCATTTTATAGTCGAACATCAGCGATTATCTGGACTTGGTTATTGTTTCTCTGCATCACA
ACCACCATTTTTGACGCAAGCAGCAATTTCTGCATTGGACATTTTTGAAAATGAACCAAA
AATTTTTAACCAATTGAACGATACTGCAGAAAAAGTTGATGAACAATTTAGATACTTCTC
AAAACTTGAATTAAGAGGTCATCCAATTTCACCAGTCAAACATTTATATTTAAAAGACAT
TGACGATAGCGATAAATGCGAAAAAATTCTTCGTAAAATTGCTGATGAATGCATTAAAAA
AGGACTTGCAGTTGCATATTCTGAATATCTTCCTGTAGAAAAATTTCCACCAAGAAGAAG
CTTGCGAATCACAATCAATAGACTTTTAACTGAAGACGATATAACAAATGCATTTAAAAT
ATTAGAAGAAGTCTCAAAGAGTGTAGTTTGA
>g13963.t4 Gene=g13963 Length=189
IGQHGRGITELLCVDKSEVDLISASLENAVESIGGFCVGSHFIVEHQRLSGLGYCFSASQ
PPFLTQAAISALDIFENEPKIFNQLNDTAEKVDEQFRYFSKLELRGHPISPVKHLYLKDI
DDSDKCEKILRKIADECIKKGLAVAYSEYLPVEKFPPRRSLRITINRLLTEDDITNAFKI
LEEVSKSVV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g13963.t4 | Gene3D | G3DSA:3.40.640.10 | - | 1 | 77 | 0 |
| 1 | g13963.t4 | PANTHER | PTHR13693 | CLASS II AMINOTRANSFERASE/8-AMINO-7-OXONONANOATE SYNTHASE | 1 | 188 | 0 |
| 2 | g13963.t4 | PANTHER | PTHR13693:SF2 | SERINE PALMITOYLTRANSFERASE 1 | 1 | 188 | 0 |
| 3 | g13963.t4 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 1 | 186 | 0 |
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:0003824 | catalytic 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.
