General information for g39.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been not been annotated.
Parent gene
- The parent gene g39 is located on chr_3: 380663..382690 (+ 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 | g39 | g39.t1 | isoform | g39.t1 | 380663 | 382690 |
| chr_3 | g39 | g39.t1 | exon | g39.t1.exon1 | 380663 | 380772 |
| chr_3 | g39 | g39.t1 | cds | g39.t1.CDS1 | 380663 | 380770 |
| chr_3 | g39 | g39.t1 | exon | g39.t1.exon2 | 382489 | 382690 |
| chr_3 | g39 | g39.t1 | cds | g39.t1.CDS2 | 382490 | 382690 |
| chr_3 | g39 | g39.t1 | TTS | g39.t1 | 383426 | 383426 |
| chr_3 | g39 | g39.t1 | TSS | g39.t1 | NA | NA |
Sequences
>g39.t1 Gene=g39 Length=312
ATGGCTGAAGCGATAACGATTCATAAAAGTTCAAGGTCGATCCGAATCGAAATAGTAATC
GATGTACGAATTCATTCTAAAATCAAAAATCATATGGATCGGCAAAAGTGAAGACAAACA
GCTGAGGAACGAGAAGCTGAGCGTCAAGCAGCAAATCGATTAATGTTATCACTACAAGCA
GAAGCGTTAAGTAAGGGATTTGGAGCACCTGCACCGCCATCAGCATTATCAACAACTGGT
GCTCCTTTAGCTGCATTACATGGATTACAACCATGGGCTGGTCCTCCACCACCAGAAGCA
CATACTGCATAA
>g39.t1 Gene=g39 Length=102
MAEAITIHKSSRSIRIEIVIDVRIHSKIKNHMDRQKRQTAEEREAERQAANRLMLSLQAE
ALSKGFGAPAPPSALSTTGAPLAALHGLQPWAGPPPPEAHTA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g39.t1 | Coils | Coil | Coil | 28 | 60 | - |
| 3 | g39.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 67 | 102 | - |
| 1 | g39.t1 | PANTHER | PTHR45921 | IP01054P | 25 | 92 | 1.2E-23 |
| 2 | g39.t1 | PANTHER | PTHR45921:SF6 | C15 | 25 | 92 | 1.2E-23 |
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:0003677 | DNA binding | MF |
| GO:0003700 | DNA-binding transcription factor 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