General information for g11813.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Actin-related protein 2/3 complex subunit 4.
Parent gene
- The parent gene g11813 is located on chr_1: 18530853..18534273 (- 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_1 | g11813 | g11813.t1 | TTS | g11813.t1 | 18530103 | 18530103 |
| chr_1 | g11813 | g11813.t1 | isoform | g11813.t1 | 18530269 | 18530853 |
| chr_1 | g11813 | g11813.t1 | exon | g11813.t1.exon1 | 18530269 | 18530691 |
| chr_1 | g11813 | g11813.t1 | cds | g11813.t1.CDS1 | 18530269 | 18530691 |
| chr_1 | g11813 | g11813.t1 | exon | g11813.t1.exon2 | 18530770 | 18530853 |
| chr_1 | g11813 | g11813.t1 | cds | g11813.t1.CDS2 | 18530770 | 18530853 |
| chr_1 | g11813 | g11813.t1 | TSS | g11813.t1 | 18530925 | 18530925 |
Sequences
>g11813.t1 Gene=g11813 Length=507
ATGGCTGCAACATTAAAGCCTTATTTAACAGCAGTTCGTCACACCTTAACTGCCGCAATG
TGTTTAGATAATTTCTCCTCTCAAGTAATCGAAAGGCACAACAAACCTGAAATTGAAGTT
AAATCATCAAAGGAATTAGTTTTAAATCCTGTTGTGATCTCTCGTAATGAAAAAGAGCGA
GTATTGATTGAGACAAGTGTAAATTCTGTTCGTATCAGTATTTCAATTAAACAAGCAGAT
GAAATTGAAAAGATTCTTTGCCACAAATTTACTCGATTTATGATGATGAGAGCAGAGAGT
TTTGTAATATTGAGAAGAAAACCAATTGAAGGATATGACATTTCATTTCTTATTACTAAT
TTTCATACAGAACAAATGTTTAAGCATAAATTAGTTGATTTTGTTATTCATTTTATAGAA
GAAGTTGATAAAGAGATAAGTGAACTCAAGCTTTCTGTGAATAGCCGAGCTCGTATTTGT
GCGGAAGAATTTTTAAAACGATTCTAA
>g11813.t1 Gene=g11813 Length=168
MAATLKPYLTAVRHTLTAAMCLDNFSSQVIERHNKPEIEVKSSKELVLNPVVISRNEKER
VLIETSVNSVRISISIKQADEIEKILCHKFTRFMMMRAESFVILRRKPIEGYDISFLITN
FHTEQMFKHKLVDFVIHFIEEVDKEISELKLSVNSRARICAEEFLKRF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11813.t1 | Gene3D | G3DSA:3.30.1460.20 | - | 1 | 168 | 0 |
| 2 | g11813.t1 | PANTHER | PTHR22629 | ARP2/3 COMPLEX 20 KD SUBUNIT | 1 | 168 | 0 |
| 3 | g11813.t1 | PANTHER | PTHR22629:SF1 | ACTIN-RELATED PROTEIN 2/3 COMPLEX SUBUNIT 4 | 1 | 168 | 0 |
| 6 | g11813.t1 | PIRSF | PIRSF039100 | ARPC4 | 1 | 168 | 0 |
| 1 | g11813.t1 | Pfam | PF05856 | ARP2/3 complex 20 kDa subunit (ARPC4) | 1 | 166 | 0 |
| 4 | g11813.t1 | SUPERFAMILY | SSF69645 | Arp2/3 complex subunits | 3 | 168 | 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:0030833 | regulation of actin filament polymerization | BP |
| GO:0005885 | Arp2/3 protein complex | CC |
| GO:0034314 | Arp2/3 complex-mediated actin nucleation | BP |
| GO:0015629 | actin cytoskeleton | CC |
| GO:0030041 | actin filament polymerization | BP |
KEGG
Orthology
- This transcript has been annotated with K05755 (actin related protein 2/3 complex, subunit 4)
Pathway
- This transcript belongs to the following pathways
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.
