General information for g1278.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Gelsolin, cytoplasmic.
Parent gene
- The parent gene g1278 is located on chr_3: 9416754..9424233 (- 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 | g1278 | g1278.t5 | TTS | g1278.t5 | 9411710 | 9411710 |
| chr_3 | g1278 | g1278.t5 | isoform | g1278.t5 | 9411812 | 9413055 |
| chr_3 | g1278 | g1278.t5 | exon | g1278.t5.exon1 | 9411812 | 9411868 |
| chr_3 | g1278 | g1278.t5 | cds | g1278.t5.CDS1 | 9411812 | 9411868 |
| chr_3 | g1278 | g1278.t5 | exon | g1278.t5.exon2 | 9412346 | 9412404 |
| chr_3 | g1278 | g1278.t5 | cds | g1278.t5.CDS2 | 9412346 | 9412404 |
| chr_3 | g1278 | g1278.t5 | exon | g1278.t5.exon3 | 9412465 | 9412531 |
| chr_3 | g1278 | g1278.t5 | cds | g1278.t5.CDS3 | 9412465 | 9412531 |
| chr_3 | g1278 | g1278.t5 | exon | g1278.t5.exon4 | 9412593 | 9412676 |
| chr_3 | g1278 | g1278.t5 | cds | g1278.t5.CDS4 | 9412593 | 9412676 |
| chr_3 | g1278 | g1278.t5 | exon | g1278.t5.exon5 | 9412729 | 9413055 |
| chr_3 | g1278 | g1278.t5 | cds | g1278.t5.CDS5 | 9412729 | 9412980 |
| chr_3 | g1278 | g1278.t5 | TSS | g1278.t5 | NA | NA |
Sequences
>g1278.t5 Gene=g1278 Length=594
GATGTTTTCATTTTGGAAACACCGACAAATACTTTTGTTTGGTATGGAAAAGGTGCAAAT
GATTTTGAACAATCAATGGGATTGAGCGTTAGTAAAACAATTTCTCCTGGTCGTGATGCA
ATTGTTATCTATGAAGGAGAAGAACCAAATGAATTTTGGGATGCATTAGGAGGAAAGGGC
GATTATGATCATGAAATTGACCCACCTGGCGCACCATTCTTAGAACCACGTTTGTTCCAT
TGCTCTATTAAAACAAATGGTAAATTTAAAGTTGAAGAAGTTTCACAGTTCGAACAAGAT
GATTTGGATCCTGATGATATCATGGTGCTCGATGGTGGTGATGAAGTTTATGTTTGGGTT
GGAAAGGGATCAACTGATGAAGAAAAAGCAAAGAGCATTGAAATGGCAAATGAATATATC
CGTACTGATCCAACTGAAAGAAGTGAAGAAACTGTAACAATTATTACTGTTCAACAAGGT
GGAGAACCAAGAAGTTTCAAACGTTTATTCCCAGCATGGAATGACCATTTGTGGGAGAAA
TACGTTTCATATGAAGATTATAGAAATCAAGTCATGGCTGCAAACAAGAAGTGA
>g1278.t5 Gene=g1278 Length=172
MGLSVSKTISPGRDAIVIYEGEEPNEFWDALGGKGDYDHEIDPPGAPFLEPRLFHCSIKT
NGKFKVEEVSQFEQDDLDPDDIMVLDGGDEVYVWVGKGSTDEEKAKSIEMANEYIRTDPT
ERSEETVTIITVQQGGEPRSFKRLFPAWNDHLWEKYVSYEDYRNQVMAANKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g1278.t5 | CDD | cd11291 | gelsolin_S6_like | 50 | 149 | 0 |
| 8 | g1278.t5 | Gene3D | G3DSA:3.40.20.10 | Severin | 46 | 168 | 0 |
| 2 | g1278.t5 | PANTHER | PTHR11977 | VILLIN | 11 | 164 | 0 |
| 5 | g1278.t5 | PRINTS | PR00597 | Gelsolin family signature | 20 | 39 | 0 |
| 3 | g1278.t5 | PRINTS | PR00597 | Gelsolin family signature | 74 | 96 | 0 |
| 4 | g1278.t5 | PRINTS | PR00597 | Gelsolin family signature | 103 | 122 | 0 |
| 1 | g1278.t5 | Pfam | PF00626 | Gelsolin repeat | 64 | 141 | 0 |
| 7 | g1278.t5 | SMART | SM00262 | VILL_6 | 51 | 148 | 0 |
| 6 | g1278.t5 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 23 | 159 | 0 |
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:0051015 | actin filament 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.
