General information for g5733.t5
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.t5 | TSS | g5733.t5 | 11447475 | 11447475 |
| chr_2 | g5733 | g5733.t5 | isoform | g5733.t5 | 11447678 | 11450411 |
| chr_2 | g5733 | g5733.t5 | exon | g5733.t5.exon1 | 11447678 | 11447695 |
| chr_2 | g5733 | g5733.t5 | cds | g5733.t5.CDS1 | 11447678 | 11447695 |
| chr_2 | g5733 | g5733.t5 | exon | g5733.t5.exon2 | 11448708 | 11449525 |
| chr_2 | g5733 | g5733.t5 | cds | g5733.t5.CDS2 | 11448708 | 11449523 |
| chr_2 | g5733 | g5733.t5 | exon | g5733.t5.exon3 | 11449634 | 11450411 |
| chr_2 | g5733 | g5733.t5 | TTS | g5733.t5 | NA | NA |
Sequences
>g5733.t5 Gene=g5733 Length=1614
ATGTCTGCTGACAAACAATTTTCTGCAATGGATACATCAGGTTATGTTGGTTTTGCTAAT
TTGCCAAATCAAGTACATCGAAAGTCAGTGAAAAAAGGATTCGAGTTCACATTGATGATT
GTTGGCGAAAGTGGACTAGGCAAATCAACCTTAGTCAACTCTCTATTTTTAACAGACTTG
TATCCAGAGAGAGTTGTTCCTGATGCCGTTGAGAGACAAAAACAAACTTTAAAATTGGAT
GCTTCTACAGTTGAGATTGAAGAACGTGGTGTTAAACTTCGTTTGACAGTAGTTGATGTG
CCAGGTTTTGGTGATGCCATTGATAATTCAAATAGTTTCAACTCAATTTTGGAGTATATT
GATGAGCAATATGAGAGATATTTAAGAGATGAAAGTGGTTTGAATCGTAGAAATATCGTT
GATAATCGTGTTCATTGCTGCTTCTATTTTATATCACCCTTTGGTCATGGGCTAAAACCA
CTTGACATTGAGTTTATGAAAAAGTTACATCTTAAAGTGAATATTGTTCCCGTGATTGCA
AAAGCAGATATGTTGACTAAGAAAGAAGTCAGTCGTTTAAAGATGAGAATTCTTGAAGAA
ATCAAAGAGAATGGTATTAAAATTTATCCATTACCCGATTGTGACTCAGACGAGGATGAA
GATTACAAAGAACAAGTTAGACAATTGAAAGAAGCCGTCCCTTTTGCAGTTTGTGGTTCA
ACTACCTTACTAGAAGTAAAAGGAAAAAAAGTCAGAGGTCGTTTATATCCATGGGGCGTA
GTTGAGGTGAAATTTATATTTTTTAACCTTATAAAAATTTTATTCTTATTTTAATTTACT
CATATGCAAGATTTGCAAGAAGTAACACAAGAAGTTCATTATGAAAATTATCGTTCTGAG
AGATTAGCAAAGGCAAGTCGATCAAATGGAAAAGTGACAAATGGAACTAATGGACATCTC
GCTAAAGAGGAAGTCTTTGAGGATGATGCAGCAGAAAAGGATAGAATCCTAAAGGAAAAA
GAAGCAGAATTAAAAAGAATGCAGGAAATGTTAGCACAAATGCAAGCAAAAATTCAAGCG
CAACAACAATAATTTATTTTAAAATTTTTATCTCATAAAAGAATACATTTCAAACAAGAA
ATATTTTAATGACAAGATCTTATTTAAAGAGATTTTATTTCATCCTAAAATTATATTATT
GATTGTCATTATCCCGCTTATATTTTATATGTTTTATATCAGCAATGCTATTCATCATAT
ATTTTAATTAATTTAGTATTTTTTTGTGCCAATATGTTTCTATATTACTTAATTCTAATA
TAGTCGAGCAGAATTTATGTAACTTCCGATTATATTTTATTGAGACAACTCACTCTTTGA
AGACATTTCGAAAACAAATTTTCTATAGAAATGTACTTATGGACAAAAAAAATATTTCGA
TTATTTCCTCGATTTTAGCTTTTAAGAAAAAAGTTTAGAGATTTTAAGAGCATGCATTTG
CTAAGCATTATATTTTTTCACTATATACATACAAAAATAAAGAATATCCACTTTCTTGAA
AAATAATTTATTAATAATTTCAATTTAAAGTTTAATCTACATTATGTGATAAAT
>g5733.t5 Gene=g5733 Length=277
MSADKQFSAMDTSGYVGFANLPNQVHRKSVKKGFEFTLMIVGESGLGKSTLVNSLFLTDL
YPERVVPDAVERQKQTLKLDASTVEIEERGVKLRLTVVDVPGFGDAIDNSNSFNSILEYI
DEQYERYLRDESGLNRRNIVDNRVHCCFYFISPFGHGLKPLDIEFMKKLHLKVNIVPVIA
KADMLTKKEVSRLKMRILEEIKENGIKIYPLPDCDSDEDEDYKEQVRQLKEAVPFAVCGS
TTLLEVKGKKVRGRLYPWGVVEVKFIFFNLIKILFLF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g5733.t5 | CDD | cd01850 | CDC_Septin | 32 | 263 | 2.05465E-132 |
| 5 | g5733.t5 | Gene3D | G3DSA:3.40.50.300 | - | 11 | 269 | 1.2E-94 |
| 2 | g5733.t5 | PANTHER | PTHR18884:SF71 | SEPTIN-4 | 11 | 263 | 1.7E-159 |
| 3 | g5733.t5 | PANTHER | PTHR18884 | SEPTIN | 11 | 263 | 1.7E-159 |
| 9 | g5733.t5 | PIRSF | PIRSF006698 | Septin | 1 | 266 | 5.4E-116 |
| 1 | g5733.t5 | Pfam | PF00735 | Septin | 32 | 264 | 7.5E-106 |
| 6 | g5733.t5 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 254 | - |
| 8 | g5733.t5 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 255 | 275 | - |
| 7 | g5733.t5 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 276 | 277 | - |
| 11 | g5733.t5 | ProSiteProfiles | PS51719 | Septin-type guanine nucleotide-binding (G) domain profile. | 32 | 277 | 91.266 |
| 4 | g5733.t5 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 12 | 262 | 9.3E-27 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5733/g5733.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5733.t5.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.
