General information for g3609.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3609 is located on chr_3: 26733786..26736804 (- 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 | g3609 | g3609.t1 | TTS | g3609.t1 | 26733722 | 26733722 |
| chr_3 | g3609 | g3609.t1 | isoform | g3609.t1 | 26733786 | 26734269 |
| chr_3 | g3609 | g3609.t1 | exon | g3609.t1.exon1 | 26733786 | 26733956 |
| chr_3 | g3609 | g3609.t1 | cds | g3609.t1.CDS1 | 26733786 | 26733956 |
| chr_3 | g3609 | g3609.t1 | exon | g3609.t1.exon2 | 26734057 | 26734269 |
| chr_3 | g3609 | g3609.t1 | cds | g3609.t1.CDS2 | 26734057 | 26734269 |
| chr_3 | g3609 | g3609.t1 | TSS | g3609.t1 | 26734293 | 26734293 |
Sequences
>g3609.t1 Gene=g3609 Length=384
ATGGATACAACTGAAGATGAAAAAGATCTTCATAGTTTTTCAAGCGAAGATAATTTCAAA
AAAGTTATTAGATCTACCCGAATGAAACTAGTGTCTTCAACAAAAGCTGAAAGTGGATTT
GTACGCCGCTCTAGTAGAGCTTATAAAGGAAGAAAAAGCGAACTTAGCGAACTTAGTGAT
GAAGAAATTGAAGTGCAAATAAATAAATTACCAGTAAAAACTTTGCGAAAGTACAAAAGA
TTCTATGACTTATCTGCAAATGTAAACATGAGCAAACCTAAATTAGTGAAATTAGTCGAA
AATCATTTCAAGCATATCGATGTATCATCAGAAAACGAAATTATTACATATTTTATTCAT
TTCATCAAAACTTATAAAGAATGA
>g3609.t1 Gene=g3609 Length=127
MDTTEDEKDLHSFSSEDNFKKVIRSTRMKLVSSTKAESGFVRRSSRAYKGRKSELSELSD
EEIEVQINKLPVKTLRKYKRFYDLSANVNMSKPKLVKLVENHFKHIDVSSENEIITYFIH
FIKTYKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g3609.t1 | Gene3D | G3DSA:1.10.720.110 | - | 42 | 127 | 0 |
| 2 | g3609.t1 | PANTHER | PTHR13286 | SAP30 | 36 | 126 | 0 |
| 1 | g3609.t1 | Pfam | PF13867 | Sin3 binding region of histone deacetylase complex subunit SAP30 | 70 | 123 | 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:0005515 | protein binding | 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.
