General information for g1279.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Gelsolin, cytoplasmic.
Parent gene
- The parent gene g1279 is located on chr_3: 9417989..9421548 (- 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 | g1279 | g1279.t3 | TTS | g1279.t3 | 9417096 | 9417096 |
| chr_3 | g1279 | g1279.t3 | isoform | g1279.t3 | 9417233 | 9418690 |
| chr_3 | g1279 | g1279.t3 | exon | g1279.t3.exon1 | 9417233 | 9417300 |
| chr_3 | g1279 | g1279.t3 | cds | g1279.t3.CDS1 | 9417233 | 9417300 |
| chr_3 | g1279 | g1279.t3 | exon | g1279.t3.exon2 | 9417359 | 9417422 |
| chr_3 | g1279 | g1279.t3 | cds | g1279.t3.CDS2 | 9417359 | 9417422 |
| chr_3 | g1279 | g1279.t3 | exon | g1279.t3.exon3 | 9417483 | 9417569 |
| chr_3 | g1279 | g1279.t3 | cds | g1279.t3.CDS3 | 9417483 | 9417569 |
| chr_3 | g1279 | g1279.t3 | exon | g1279.t3.exon4 | 9417638 | 9418208 |
| chr_3 | g1279 | g1279.t3 | cds | g1279.t3.CDS4 | 9417638 | 9418208 |
| chr_3 | g1279 | g1279.t3 | exon | g1279.t3.exon5 | 9418263 | 9418690 |
| chr_3 | g1279 | g1279.t3 | cds | g1279.t3.CDS5 | 9418263 | 9418459 |
| chr_3 | g1279 | g1279.t3 | TSS | g1279.t3 | NA | NA |
Sequences
>g1279.t3 Gene=g1279 Length=1218
ATGTGGAAATTGCTGTTGACTATTTTAAGGTATTTTATCATACTTGACTCCTAAGAAAAT
ATTTTTTTTACTAAAAATTTATTTATTCTACCTAGTTTACATAAATTTATAAATTGTCAA
GAATTTAATATATCACATTTACATAAAACTAGACCGAAGGACTATAGTTTTAGTTTCATT
CCTGATAATGGAGAGGGTGAAACTGAAATTTTCAGATTTATAAATTCAAACATGTTTTCT
GTTGAATTAAAAGATTATGGCGTTTTTGATGGTGGTGATTCTTATGTCGTAAAATATAAA
TACAAAGATAAAAATTATAAAGACAGCTATATTATTTATAGTTGGAAAGGAATCAATTCC
AACAGATTTGAAAAAGTTGGAGCAATTTTCTTTTCCGTGAAAATGAAAAATGATTTGACA
AAACGAAAATTCATTATGGCTGGATTACCAACTAAGCTAAGCAATGACACAGAAGACATT
TTTGTGAAGCAAATTCAAATAGATCAAAGTTGTGAAACTCCACATTTTTTAAAAATTTTT
AAAGGCAAAACTTTATTTACTGGTATTTTTAATCAAGATTCTTATGATATTGATGGAATA
AGGCTATTTAGAATTCGTGGAACTAATGAGGGAAATGTTCGCACTACTCAAGTTGAAAAA
ATAGCTAAATCGCTTGCATCAGATGATGTTTTTATTTTAGACACACCAGCAAATACTTTT
GTTTGGTATGGTGATGGTGCAAACGACTTTGAGTACTCAACAGGACTTCTTATGAGTAAA
AGATTCTCTCAAGACCGAAATGCAATTGTTATTTATGAAGGTGAAGAGCCAGATGAATTT
TGGAATGCATTAGGAGGAAAGGATGATTATGACCATGAAATCGATCCATCATCTTCATCA
TTTGAAATACGTTTTTTTAAATGTACTAGATTTATAACACACCTTGGGGAAACTTTCATT
TTTGATGACCTTGATTCATTTTCCGATGAGATTTTAGTGATTGATGATGGTAATGAAAAT
GTGTACTTTTATATAGGAGAGAAAACTCATGAAATACAAATAAAACAATGTTTCATTGAA
ACAAAAGCTTACATTGAAACTGAACCAACTGGACGATTTAAGAATTTGGAACCAATAATT
CTTCAAAGAGGTAATGTAACAAAAGCTTTCAAAAGATTATTCTCATGTAATGATATTTTT
TGGGATTTACGACATTAA
>g1279.t3 Gene=g1279 Length=328
MFSVELKDYGVFDGGDSYVVKYKYKDKNYKDSYIIYSWKGINSNRFEKVGAIFFSVKMKN
DLTKRKFIMAGLPTKLSNDTEDIFVKQIQIDQSCETPHFLKIFKGKTLFTGIFNQDSYDI
DGIRLFRIRGTNEGNVRTTQVEKIAKSLASDDVFILDTPANTFVWYGDGANDFEYSTGLL
MSKRFSQDRNAIVIYEGEEPDEFWNALGGKDDYDHEIDPSSSSFEIRFFKCTRFITHLGE
TFIFDDLDSFSDEILVIDDGNENVYFYIGEKTHEIQIKQCFIETKAYIETEPTGRFKNLE
PIILQRGNVTKAFKRLFSCNDIFWDLRH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g1279.t3 | CDD | cd11288 | gelsolin_S5_like | 121 | 212 | 0.0e+00 |
| 16 | g1279.t3 | Gene3D | G3DSA:3.40.20.10 | Severin | 1 | 124 | 0.0e+00 |
| 14 | g1279.t3 | Gene3D | G3DSA:3.40.20.10 | Severin | 125 | 216 | 0.0e+00 |
| 15 | g1279.t3 | Gene3D | G3DSA:3.40.20.10 | Severin | 218 | 327 | 1.0e-07 |
| 2 | g1279.t3 | PANTHER | PTHR11977 | VILLIN | 7 | 318 | 0.0e+00 |
| 7 | g1279.t3 | PRINTS | PR00597 | Gelsolin family signature | 8 | 24 | 0.0e+00 |
| 4 | g1279.t3 | PRINTS | PR00597 | Gelsolin family signature | 34 | 52 | 0.0e+00 |
| 8 | g1279.t3 | PRINTS | PR00597 | Gelsolin family signature | 136 | 156 | 0.0e+00 |
| 5 | g1279.t3 | PRINTS | PR00597 | Gelsolin family signature | 196 | 215 | 0.0e+00 |
| 6 | g1279.t3 | PRINTS | PR00597 | Gelsolin family signature | 247 | 269 | 0.0e+00 |
| 3 | g1279.t3 | PRINTS | PR00597 | Gelsolin family signature | 276 | 295 | 0.0e+00 |
| 1 | g1279.t3 | Pfam | PF00626 | Gelsolin repeat | 137 | 204 | 6.7e-05 |
| 13 | g1279.t3 | SMART | SM00262 | VILL_6 | 2 | 106 | 4.7e-01 |
| 12 | g1279.t3 | SMART | SM00262 | VILL_6 | 123 | 210 | 0.0e+00 |
| 10 | g1279.t3 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 8 | 132 | 0.0e+00 |
| 11 | g1279.t3 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 114 | 219 | 0.0e+00 |
| 9 | g1279.t3 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 199 | 318 | 9.0e-07 |
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.
