General information for g5423.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Syntaxin-5.
Parent gene
- The parent gene g5423 is located on chr_2: 9516352..9517140 (+ 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_2 | g5423 | g5423.t5 | TSS | g5423.t5 | 9515742 | 9515742 |
| chr_2 | g5423 | g5423.t5 | isoform | g5423.t5 | 9515824 | 9516250 |
| chr_2 | g5423 | g5423.t5 | exon | g5423.t5.exon1 | 9515824 | 9516250 |
| chr_2 | g5423 | g5423.t5 | cds | g5423.t5.CDS1 | 9515824 | 9516249 |
| chr_2 | g5423 | g5423.t5 | TTS | g5423.t5 | 9517147 | 9517147 |
Sequences
>g5423.t5 Gene=g5423 Length=427
ATGCGAAAAAGATTCAATTCAGAGTCTGAAAATTCAGTGACCCAAATTATTGTCGAAGAA
GATAATAAATATAAGGATAAAGCACTAGGAGCTGAAAATTTAGCAACAAAATTATTTAAG
ACATTTTACAAAAGTGAAAATAATTATCCAAATTCTGCTTTAAACAGCAGCAAATTAAAT
ACAACAGTAAACGAAGATTATTTATTGCCTGATCCGGAAACAGAAGAAATTTTCGTCATG
ACAGCTCGCGATAGAACAGTTGAATTCTCAAATACGATTCGCAGTCTACAAGGTCGAAAT
ATTAATCGTGTAGTGAATTTAAGAGACCCTAAGAAAGTCAAGCAAATGCAAAGTTATTCA
GAGTTTATGAGCATTGCGAAAAACATAGGAAAAAATATTGCGAGTACATATGCAAAGTTA
GAGAAAT
>g5423.t5 Gene=g5423 Length=142
MRKRFNSESENSVTQIIVEEDNKYKDKALGAENLATKLFKTFYKSENNYPNSALNSSKLN
TTVNEDYLLPDPETEEIFVMTARDRTVEFSNTIRSLQGRNINRVVNLRDPKKVKQMQSYS
EFMSIAKNIGKNIASTYAKLEK
Protein features from InterProScan
No InterPro annotations for this transcript.
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5423/g5423.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5423.t5.fa.iupred3.txt does not exist
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.
