General information for g10194.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Actin-related protein 3.
Parent gene
- The parent gene g10194 is located on chr_1: 8165528..8166261 (+ 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 | g10194 | g10194.t2 | TSS | g10194.t2 | 8163978 | 8163978 |
| chr_1 | g10194 | g10194.t2 | isoform | g10194.t2 | 8164080 | 8164850 |
| chr_1 | g10194 | g10194.t2 | exon | g10194.t2.exon1 | 8164080 | 8164123 |
| chr_1 | g10194 | g10194.t2 | cds | g10194.t2.CDS1 | 8164080 | 8164123 |
| chr_1 | g10194 | g10194.t2 | exon | g10194.t2.exon2 | 8164251 | 8164431 |
| chr_1 | g10194 | g10194.t2 | cds | g10194.t2.CDS2 | 8164251 | 8164431 |
| chr_1 | g10194 | g10194.t2 | exon | g10194.t2.exon3 | 8164492 | 8164850 |
| chr_1 | g10194 | g10194.t2 | cds | g10194.t2.CDS3 | 8164492 | 8164848 |
| chr_1 | g10194 | g10194.t2 | TTS | g10194.t2 | NA | NA |
Sequences
>g10194.t2 Gene=g10194 Length=584
ATGACAGGAAGGCTTCCAGCTTGTGTAATTGATGTTGGTACCGGTTATACTAAATTAGGC
TACGCTGCTAATAAAGATCCACAATTTATCTTTCCATCTGCAATTGCCATCAAAGAGAGC
GCTCGTGTTGGTGACCAAACAGCTCGCAGAATAACAAAAGGTGTCGAAGATTTAGATTTT
TATATCGGCGATGAAGCATTTGATGCAACTGGATATGCAGTAAAGTATCCTGTTCGTCAT
GGCTTAGTAGAAGATTGGGATTTAATGGAACGATTTTTGGAACAATGTATTTTCAAATAT
TTACGTGCTGAACCTGGAGATCATCATTTTTTGCTCACTGAACCACCACTCAACACACCC
GAAAATCGTGAATATACTGCCGAGATAATGTTTGAAACATTCAACGTTCCTGGGCTTTAT
ATCGCCGTACAAGCTGTGTTGGCACTGGCTGCCAGTTGGGCTTCTCGTCCTGTTGAAGAA
CGCACACTGACTGGAATTGTGATTGATAGTGGTGATGGTGTCACTCATGTCATTCCAGTT
GCCGAGGGCTATGTTATTGGATCTTGTATCAAGCATATTCCAAT
>g10194.t2 Gene=g10194 Length=194
MTGRLPACVIDVGTGYTKLGYAANKDPQFIFPSAIAIKESARVGDQTARRITKGVEDLDF
YIGDEAFDATGYAVKYPVRHGLVEDWDLMERFLEQCIFKYLRAEPGDHHFLLTEPPLNTP
ENREYTAEIMFETFNVPGLYIAVQAVLALAASWASRPVEERTLTGIVIDSGDGVTHVIPV
AEGYVIGSCIKHIP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g10194.t2 | CDD | cd00012 | NBD_sugar-kinase_HSP70_actin | 81 | 193 | 1.12611E-9 |
| 8 | g10194.t2 | Gene3D | G3DSA:2.30.36.70 | Actin; Chain A | 35 | 75 | 2.0E-24 |
| 9 | g10194.t2 | Gene3D | G3DSA:3.30.420.40 | - | 160 | 194 | 4.0E-6 |
| 2 | g10194.t2 | PANTHER | PTHR11937 | ACTIN | 5 | 194 | 2.4E-100 |
| 3 | g10194.t2 | PANTHER | PTHR11937:SF175 | ACTIN-RELATED PROTEIN 3 | 5 | 194 | 2.4E-100 |
| 1 | g10194.t2 | Pfam | PF00022 | Actin | 5 | 193 | 1.2E-46 |
| 7 | g10194.t2 | ProSitePatterns | PS01132 | Actins and actin-related proteins signature. | 111 | 123 | - |
| 6 | g10194.t2 | SMART | SM00268 | actin_3 | 5 | 194 | 3.6E-9 |
| 5 | g10194.t2 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 5 | 155 | 2.0E-49 |
| 4 | g10194.t2 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 162 | 194 | 3.8E-8 |
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:0007015 | actin filament organization | BP |
| GO:0005885 | Arp2/3 protein complex | CC |
| GO:0034314 | Arp2/3 complex-mediated actin nucleation | BP |
| GO:0005524 | ATP 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.
