General information for g1280.t19
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Gelsolin.
Parent gene
- The parent gene g1280 is located on chr_3: 9419667..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 | g1280 | g1280.t19 | TTS | g1280.t19 | 9418880 | 9418880 |
| chr_3 | g1280 | g1280.t19 | isoform | g1280.t19 | 9418995 | 9421224 |
| chr_3 | g1280 | g1280.t19 | exon | g1280.t19.exon1 | 9418995 | 9419593 |
| chr_3 | g1280 | g1280.t19 | cds | g1280.t19.CDS1 | 9418995 | 9419519 |
| chr_3 | g1280 | g1280.t19 | exon | g1280.t19.exon2 | 9419841 | 9419939 |
| chr_3 | g1280 | g1280.t19 | exon | g1280.t19.exon3 | 9420003 | 9420077 |
| chr_3 | g1280 | g1280.t19 | exon | g1280.t19.exon4 | 9420134 | 9420248 |
| chr_3 | g1280 | g1280.t19 | exon | g1280.t19.exon5 | 9420321 | 9420486 |
| chr_3 | g1280 | g1280.t19 | exon | g1280.t19.exon6 | 9421190 | 9421224 |
| chr_3 | g1280 | g1280.t19 | TSS | g1280.t19 | 9421282 | 9421282 |
Sequences
>g1280.t19 Gene=g1280 Length=1089
GCTACTTTACTTGTTTTAGATTTCCAAAGTCAAAGTTGAAGCAGTTGATTGAACTACTTT
GAGAAAGAAAACATTGTGTAATAGTGATGAATAAGAAATTACCATAAGCGAATACTATTT
TTTTAAAACTTCTTTCATTTGCAGTATCTTGAATACGCAAAACATGTGGAAACTGTGCTG
TGTTTTAATAATCGCTATAAGCGCGTTAAATTCAATAGAATGTGCAACAACTCAAAGTAG
ACCAAGTCAAGTAGTCATCCCGCAAGCATTCATAAATGCAGGAAAAACAAAAGGTTTAGA
GATTTGGAGGATTGAGAATTTTAAAGTTGTTGCTGTGCAAAAAAATACCTATGGCCAATT
TCACACCGGCGATTCTTACATTGTATTGAATACAATGGAGAATAAAAATAAGCAACTTTC
ATGGGATGTTCATTTTTGGCTTGGACTTGAAACAACGCAAGATGAGGCAGGTGCTGCTGC
AATTTACACTGCGATTGCTTTGTTCTTGATGCTGGCAATAAAGTCTATATTTATGTTGGA
CCAAAAGCTAAACGAGTTGAGAAAATGAAGGCAACAAGTTTTGCAAATCAAGTGCGTGAT
GAAGACCATCATGGACGATCATCTGTTGAAATTGTTGATGAATTTTCAAATGATGTTGAT
AAGGCTCATTTCTTTGAAGTGCTTGGTTCAGGTTCAATTGAACAAGTGCCAGATGAAAGC
GTTGCTGAAGATGATGAGGCATTTGAAAGAAAAGAAGAAGCTGCAACAACTTTGAGTAAA
GTTAGTGATGCATCAGGAAGCTTGAAAGTTGAACAAATTAATCAAAAACCATTGAAACAA
GAAATGCTGAATACTAACGATTGCTTTATTCTTGATACTGGAAGTGGTATTTATGTTTGG
ATTGGTAAGAAATCAACTGAACAAGAGAAAAAACAAGCAATGTCACGTGCTCAGGGATTT
ATTCAAACGAAGAAATATCCTGCATGGACTAAAGTAACAAAAATCAATGAATTCACCGAA
ACAACTCCATTCAAGCAATATTTCTTTACATGGCGTGATCATGGTGCATCACATTCTCGC
CTTATTTGA
>g1280.t19 Gene=g1280 Length=174
MKATSFANQVRDEDHHGRSSVEIVDEFSNDVDKAHFFEVLGSGSIEQVPDESVAEDDEAF
ERKEEAATTLSKVSDASGSLKVEQINQKPLKQEMLNTNDCFILDTGSGIYVWIGKKSTEQ
EKKQAMSRAQGFIQTKKYPAWTKVTKINEFTETTPFKQYFFTWRDHGASHSRLI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g1280.t19 | CDD | cd11292 | gelsolin_S3_like | 65 | 160 | 0.0e+00 |
| 8 | g1280.t19 | Gene3D | G3DSA:3.40.20.10 | Severin | 61 | 172 | 0.0e+00 |
| 2 | g1280.t19 | PANTHER | PTHR11977 | VILLIN | 1 | 172 | 0.0e+00 |
| 3 | g1280.t19 | PANTHER | PTHR11977:SF55 | GELSOLIN | 1 | 172 | 0.0e+00 |
| 4 | g1280.t19 | PRINTS | PR00597 | Gelsolin family signature | 92 | 114 | 3.1e-05 |
| 5 | g1280.t19 | PRINTS | PR00597 | Gelsolin family signature | 121 | 140 | 3.1e-05 |
| 1 | g1280.t19 | Pfam | PF00626 | Gelsolin repeat | 87 | 144 | 0.0e+00 |
| 7 | g1280.t19 | SMART | SM00262 | VILL_6 | 69 | 163 | 0.0e+00 |
| 6 | g1280.t19 | SUPERFAMILY | SSF55753 | Actin depolymerizing proteins | 64 | 165 | 0.0e+00 |
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.
