General information for g5733.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Septin-1.
Parent gene
- The parent gene g5733 is located on chr_2: 11449716..11450411 (+ 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 | g5733 | g5733.t3 | TSS | g5733.t3 | 11447475 | 11447475 |
| chr_2 | g5733 | g5733.t3 | isoform | g5733.t3 | 11447678 | 11449475 |
| chr_2 | g5733 | g5733.t3 | exon | g5733.t3.exon1 | 11447678 | 11447695 |
| chr_2 | g5733 | g5733.t3 | cds | g5733.t3.CDS1 | 11447678 | 11447695 |
| chr_2 | g5733 | g5733.t3 | exon | g5733.t3.exon2 | 11448708 | 11449475 |
| chr_2 | g5733 | g5733.t3 | cds | g5733.t3.CDS2 | 11448708 | 11449475 |
| chr_2 | g5733 | g5733.t3 | TTS | g5733.t3 | 11450361 | 11450361 |
Sequences
>g5733.t3 Gene=g5733 Length=786
ATGTCTGCTGACAAACAATTTTCTGCAATGGATACATCAGGTTATGTTGGTTTTGCTAAT
TTGCCAAATCAAGTACATCGAAAGTCAGTGAAAAAAGGATTCGAGTTCACATTGATGATT
GTTGGCGAAAGTGGACTAGGCAAATCAACCTTAGTCAACTCTCTATTTTTAACAGACTTG
TATCCAGAGAGAGTTGTTCCTGATGCCGTTGAGAGACAAAAACAAACTTTAAAATTGGAT
GCTTCTACAGTTGAGATTGAAGAACGTGGTGTTAAACTTCGTTTGACAGTAGTTGATGTG
CCAGGTTTTGGTGATGCCATTGATAATTCAAATAGTTTCAACTCAATTTTGGAGTATATT
GATGAGCAATATGAGAGATATTTAAGAGATGAAAGTGGTTTGAATCGTAGAAATATCGTT
GATAATCGTGTTCATTGCTGCTTCTATTTTATATCACCCTTTGGTCATGGGCTAAAACCA
CTTGACATTGAGTTTATGAAAAAGTTACATCTTAAAGTGAATATTGTTCCCGTGATTGCA
AAAGCAGATATGTTGACTAAGAAAGAAGTCAGTCGTTTAAAGATGAGAATTCTTGAAGAA
ATCAAAGAGAATGGTATTAAAATTTATCCATTACCCGATTGTGACTCAGACGAGGATGAA
GATTACAAAGAACAAGTTAGACAATTGAAAGAAGCCGTCCCTTTTGCAGTTTGTGGTTCA
ACTACCTTACTAGAAGTAAAAGGAAAAAAAGTCAGAGGTCGTTTATATCCATGGGGCGTA
GTTGAG
>g5733.t3 Gene=g5733 Length=262
MSADKQFSAMDTSGYVGFANLPNQVHRKSVKKGFEFTLMIVGESGLGKSTLVNSLFLTDL
YPERVVPDAVERQKQTLKLDASTVEIEERGVKLRLTVVDVPGFGDAIDNSNSFNSILEYI
DEQYERYLRDESGLNRRNIVDNRVHCCFYFISPFGHGLKPLDIEFMKKLHLKVNIVPVIA
KADMLTKKEVSRLKMRILEEIKENGIKIYPLPDCDSDEDEDYKEQVRQLKEAVPFAVCGS
TTLLEVKGKKVRGRLYPWGVVE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g5733.t3 | CDD | cd01850 | CDC_Septin | 32 | 262 | 0.000 |
| 5 | g5733.t3 | Gene3D | G3DSA:3.40.50.300 | - | 11 | 262 | 0.000 |
| 2 | g5733.t3 | PANTHER | PTHR18884:SF71 | SEPTIN-4 | 11 | 262 | 0.000 |
| 3 | g5733.t3 | PANTHER | PTHR18884 | SEPTIN | 11 | 262 | 0.000 |
| 7 | g5733.t3 | PIRSF | PIRSF006698 | Septin | 1 | 262 | 0.000 |
| 1 | g5733.t3 | Pfam | PF00735 | Septin | 32 | 262 | 0.000 |
| 6 | g5733.t3 | ProSiteProfiles | PS51719 | Septin-type guanine nucleotide-binding (G) domain profile. | 32 | 262 | 93.587 |
| 4 | g5733.t3 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 12 | 259 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5733/g5733.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5733.t3.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005525 | GTP 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