General information for g10332.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been not been annotated.
Parent gene
- The parent gene g10332 is located on chr_1: 8930937..8931323 (- 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 | g10332 | g10332.t1 | TTS | g10332.t1 | 8930887 | 8930887 |
| chr_1 | g10332 | g10332.t1 | isoform | g10332.t1 | 8930937 | 8931323 |
| chr_1 | g10332 | g10332.t1 | exon | g10332.t1.exon1 | 8930937 | 8931139 |
| chr_1 | g10332 | g10332.t1 | cds | g10332.t1.CDS1 | 8930937 | 8931139 |
| chr_1 | g10332 | g10332.t1 | exon | g10332.t1.exon2 | 8931196 | 8931255 |
| chr_1 | g10332 | g10332.t1 | cds | g10332.t1.CDS2 | 8931196 | 8931255 |
| chr_1 | g10332 | g10332.t1 | exon | g10332.t1.exon3 | 8931320 | 8931323 |
| chr_1 | g10332 | g10332.t1 | cds | g10332.t1.CDS3 | 8931320 | 8931323 |
| chr_1 | g10332 | g10332.t1 | TSS | g10332.t1 | 8931347 | 8931347 |
Sequences
>g10332.t1 Gene=g10332 Length=267
ATGACTGACAGATATAATATTCATAGTCAATTAGAGCATCTTCAAAGTAAATATATTGGA
ACTGGACATAGTGATACTTTGAAATGGGAATGGCTAACAAATATTCATCGCGACAGTTTA
TCTAGTTATATCGGTCATTATGATCAACTCTCTTACTTTGCAATTGCTGAGAATGAATGT
AAAGCCAGAGTGAGATTTAATTTGATTGAAAAAATAATACAGCCTTGTGGTCCTCCAGAA
AAAATAAGCGAAAATGACATCCCTTAA
>g10332.t1 Gene=g10332 Length=88
MTDRYNIHSQLEHLQSKYIGTGHSDTLKWEWLTNIHRDSLSSYIGHYDQLSYFAIAENEC
KARVRFNLIEKIIQPCGPPEKISENDIP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g10332.t1 | PANTHER | PTHR20978:SF0 | SPLICING FACTOR 3B SUBUNIT 5 | 1 | 82 | 0 |
| 3 | g10332.t1 | PANTHER | PTHR20978 | SPLICING FACTOR 3B SUBUNIT 5 | 1 | 82 | 0 |
| 4 | g10332.t1 | PIRSF | PIRSF037010 | SF3B5 | 1 | 86 | 0 |
| 1 | g10332.t1 | Pfam | PF07189 | Splicing factor 3B subunit 10 (SF3b10) | 3 | 79 | 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:0000398 | mRNA splicing, via spliceosome | BP |
KEGG
Orthology
- This transcript has been annotated with K12832 (splicing factor 3B subunit 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.
