General information for g17727.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been not been annotated.
Parent gene
- The parent gene g17727 is located on HiC_scaffold_136: 1..2000 (+ 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 |
|---|---|---|---|---|---|---|
| HiC_scaffold_136 | g17727 | g17727.t1 | isoform | g17727.t1 | 1 | 2000 |
| HiC_scaffold_136 | g17727 | g17727.t1 | exon | g17727.t1.exon1 | 1766 | 2000 |
| HiC_scaffold_136 | g17727 | g17727.t1 | cds | g17727.t1.CDS1 | 1766 | 2000 |
| HiC_scaffold_136 | g17727 | g17727.t1 | TSS | g17727.t1 | NA | NA |
| HiC_scaffold_136 | g17727 | g17727.t1 | TTS | g17727.t1 | NA | NA |
Sequences
>g17727.t1 Gene=g17727 Length=235
GTTTGGTACCAGAACAGGAGGGCAAAATTTAGAAAACAAGAGAAAGTTGGGCCAGCTGGT
CATCCATATAACCCATACTTGACAGCGGGTGGTACTCCAGTTCCATCAGCAAGTGCTCTT
CCATCAAATCCCTTTACTCATTTGGGATTTAATTTACGAAAACAATTTGATGCTGCAAGT
TTGGCTGCATTTCGTTATCCACAATTGACAGCAAACCCAATGATTCCATCGGCCT
>g17727.t1 Gene=g17727 Length=78
VWYQNRRAKFRKQEKVGPAGHPYNPYLTAGGTPVPSASALPSNPFTHLGFNLRKQFDAAS
LAAFRYPQLTANPMIPSA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g17727.t1 | Coils | Coil | Coil | 78 | 78 | - |
| g17727.t1 | ProSiteProfiles | PS50071 | ‘Homeobox’ domain profile. | 1 | 13 | 8.616 |
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 |
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