General information for g1278.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t17 | TTS | g1278.t17 | 9412202 | 9412202 |
| chr_3 | g1278 | g1278.t17 | isoform | g1278.t17 | 9413023 | 9413563 |
| chr_3 | g1278 | g1278.t17 | exon | g1278.t17.exon1 | 9413023 | 9413563 |
| chr_3 | g1278 | g1278.t17 | cds | g1278.t17.CDS1 | 9413023 | 9413532 |
| chr_3 | g1278 | g1278.t17 | TSS | g1278.t17 | NA | NA |
Sequences
>g1278.t17 Gene=g1278 Length=541
TAAGAAAAGTGGTGGTCGTGCACTTGGCTTCATGCCAGATAATGGAGAAGGTGAAGCTGA
AGTCTTTAGAGTTGAAAATATGGAAATTGTGCCAATTCCAAAAGAAAATTATGGTTTCTT
TTTTGGTGGTGATTCTTATGTCATTAAATATGAATATAGAAATAAACGTGGTGGACATGG
ATATGTTATTTACTATTGGCAAGGGTTAACTTCATCAACTGATGAGAAAGCTGCATCAGC
AATTCATGCTGCAAAAATGAGCAGTGAAATAGGAGTAAAATCAATGCAAGTTCGTGTTGT
TCAAGGCTTTGAATCACGTCATTTCTTAAAAGTTTTTAAAGGAAAAATTGTGGTTTTAAC
TGGAGGAAAAGCCTCAGGCTTTAGAAATGTTCATGACCATGATTCTTATGATGTTGATGG
CACAAGATTGTTTAGAGTTCGTGGAACATGTGCTGATGATGTTCGTGCTAATCAAGTTGA
AGAGGTTGCCAAGTCGCTTGCATCTGATGATGTTTTCATTTTGGAAACACCGACAAATAC
T
>g1278.t17 Gene=g1278 Length=170
MPDNGEGEAEVFRVENMEIVPIPKENYGFFFGGDSYVIKYEYRNKRGGHGYVIYYWQGLT
SSTDEKAASAIHAAKMSSEIGVKSMQVRVVQGFESRHFLKVFKGKIVVLTGGKASGFRNV
HDHDSYDVDGTRLFRVRGTCADDVRANQVEEVAKSLASDDVFILETPTNT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g1278.t17 | CDD | cd11293 | gelsolin_S4_like | 1 | 102 | 0.0e+00 |
| 10 | g1278.t17 | Gene3D | G3DSA:3.40.20.10 | Severin | 3 | 132 | 0.0e+00 |
| 11 | g1278.t17 | Gene3D | G3DSA:3.40.20.10 | Severin | 133 | 170 | 4.3e-06 |
| 2 | g1278.t17 | PANTHER | PTHR11977 | VILLIN | 3 | 168 | 0.0e+00 |
| 4 | g1278.t17 | PRINTS | PR00597 | Gelsolin family signature | 26 | 42 | 0.0e+00 |
| 3 | g1278.t17 | PRINTS | PR00597 | Gelsolin family signature | 52 | 70 | 0.0e+00 |
| 6 | g1278.t17 | PRINTS | PR00597 | Gelsolin family signature | 85 | 105 | 0.0e+00 |
| 5 | g1278.t17 | PRINTS | PR00597 | Gelsolin family signature | 144 | 164 | 0.0e+00 |
| 1 | g1278.t17 | Pfam | PF00626 | Gelsolin repeat | 17 | 99 | 0.0e+00 |
| 9 | g1278.t17 | SMART | SM00262 | VILL_6 | 7 | 105 | 0.0e+00 |
| 7 | g1278.t17 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 3 | 139 | 0.0e+00 |
| 8 | g1278.t17 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 122 | 167 | 2.8e-06 |
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.
