General information for g10306.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Splicing factor 3B subunit 3.
Parent gene
- The parent gene g10306 is located on chr_1: 8873421..8873811 (- 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 | g10306 | g10306.t8 | isoform | g10306.t8 | 8872273 | 8873808 |
| chr_1 | g10306 | g10306.t8 | exon | g10306.t8.exon1 | 8872273 | 8872714 |
| chr_1 | g10306 | g10306.t8 | cds | g10306.t8.CDS1 | 8872275 | 8872682 |
| chr_1 | g10306 | g10306.t8 | exon | g10306.t8.exon2 | 8872774 | 8872963 |
| chr_1 | g10306 | g10306.t8 | exon | g10306.t8.exon3 | 8873196 | 8873463 |
| chr_1 | g10306 | g10306.t8 | exon | g10306.t8.exon4 | 8873807 | 8873808 |
| chr_1 | g10306 | g10306.t8 | TSS | g10306.t8 | 8873950 | 8873950 |
| chr_1 | g10306 | g10306.t8 | TTS | g10306.t8 | NA | NA |
Sequences
>g10306.t8 Gene=g10306 Length=902
AGATTAATTTCATAAAAGCAAGAAAAAAAAAATAGCTTGCAAATATGTACCTATATAATC
TAACACTTCAGCGTGCGACTGGCATTACATGTGCCATTCATGGAAATTTTTCGGGTTCAA
AATTACAAGAAATATTAATATCACATGGCAAAAGTTTGGAATTACTAAGGCCTGATCCGA
ATACCGGCAAAGTCCATACACTTTTGCAAACTGAAATATTTGGTGTAATTCGTTCTATGA
TGGCTTTTCGATTAACTGGATCAACAAAAGATTATGCCATTATTGGATCAGATTCAGGAA
GAATTTTAATTTTGGAGTATAATCAAGCTAAAAATCAGCTCGTAAAAGTACAATTAGAAA
CATTTGGCAAATCAGGATGTCGAAGAATAGTACCGGGTCAATATTTAGCTGTAGATCCCA
AAGGACGAGCTGTAATGATTGGAGCAATCGAAAAACAAAAAAGCACACAAATCTAACACA
CTTTGCTATCATATGGTTGGAGTTGATAATGGTTTTGATAATCCAATGTTTGCCTGCTTA
GAAATTGATTATGGTGAAATAGACTGTGATCCTTCAGGTGAAGCAGCTGCAAGAGCTAAA
CAAATCATTACATTTTATGAACTCGATTTGGGTTTGAATCATGTTGTACGAAAATATCAC
GAAGAACTCGATGAGCACGCAAATTTCTTGATCACTGTTCCTGGTGGCGGTGATGGCCCT
TCTGGTGTTTTAATTTGTTCAGAAAACTATGTGACTTATAAAAACACCGGAGCACAAGCA
GATATTCGTTGTCCAATTCCTCGACGAAGAAATGATCTCGATGATCCTGAGCGTGGAATG
ATTTTTATTTGCTCTGCTACTCATAAAACAAAATCAATGTTTTTCTTCTTACTACAAACT
GA
>g10306.t8 Gene=g10306 Length=136
MVGVDNGFDNPMFACLEIDYGEIDCDPSGEAAARAKQIITFYELDLGLNHVVRKYHEELD
EHANFLITVPGGGDGPSGVLICSENYVTYKNTGAQADIRCPIPRRRNDLDDPERGMIFIC
SATHKTKSMFFFLLQT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g10306.t8 | PANTHER | PTHR10644 | DNA REPAIR/RNA PROCESSING CPSF FAMILY | 2 | 136 | 0 |
| 3 | g10306.t8 | PANTHER | PTHR10644:SF1 | SPLICING FACTOR 3B SUBUNIT 3 | 2 | 136 | 0 |
| 1 | g10306.t8 | Pfam | PF10433 | Mono-functional DNA-alkylating methyl methanesulfonate N-term | 1 | 136 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
