General information for g4079.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Actin-related protein 10.
Parent gene
- The parent gene g4079 is located on chr_3: 30467713..30468941 (- 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 | g4079 | g4079.t10 | TTS | g4079.t10 | 30467638 | 30467638 |
| chr_3 | g4079 | g4079.t10 | isoform | g4079.t10 | 30467713 | 30468941 |
| chr_3 | g4079 | g4079.t10 | exon | g4079.t10.exon1 | 30467713 | 30468610 |
| chr_3 | g4079 | g4079.t10 | cds | g4079.t10.CDS1 | 30467713 | 30468225 |
| chr_3 | g4079 | g4079.t10 | exon | g4079.t10.exon2 | 30468670 | 30468941 |
| chr_3 | g4079 | g4079.t10 | TSS | g4079.t10 | 30469014 | 30469014 |
Sequences
>g4079.t10 Gene=g4079 Length=1170
ATGCCACTTTTTGAGACAGTATTTCAAGAGAAACCGACGATTGTGTTAGAAATTGGATCC
GCATATTCAAAGTAAGCTAAAAACTAAATTAAAGGAATATTTTTTGAGAAAAATAAAAAG
GTTTATAAAATTTACAGAATTGGTTTTTCTGCAGAAGCTTATCCAAGATTTATTATTTCG
ACAGAAATAGAATCTATCAAAGATGTACTCAAGAGTAAAGAAAAGAACATTTATGATCAA
ACAGTTGACTTTTTCAACAAAATTTTCTTCAACTACTTGCTTGTCAGTCCAAAAGATCGA
AAAATATCGATAGTAGAATCAGTATTAACGCCAACAATCATTCGAGAGTGTTTTGCAAAA
GTGCTTTTTCAACATTATGAAGTAGCATCTGTAATTTTCTTACCACTGCATTTAGTCTCT
ATTTCTACACTTGCTCTTGACACTGCTCTTGTTGTTGATTTGGGCTATAAAGAAGCCGTT
GTGATCCCGGTTTATTCTGGAGTTCAAGTTATTAATGCATGGCAAGCACAACCACTCGCT
GCTGAAGCAGTTCATGATGAAATTAAATCAAATTTAATTCTCAATGGTGTCAAGGAAGAA
ATTCTATCTGAAAGAATAATAGAAGATATCAAAGTTCGTACTTGTTTTGTAACAAAAATG
TCAAGAGCTTTGTCTTATCGAAATAATGAACAGTTGCAAGCTGCACCTGATGTAGAATAT
CCAATTGAAGGATCTGATGTTATTAAAATACCTGGTCTCTTACGAGAAATGGCTTTTGAA
GCTTTATTTCCTGAAGATAATGACTTCATGGGATTGCCTTATATAATAATTGATGCAATT
TTGAAATGTCCTGTTGATGCGAGAAAGGAGCTTGCTGAAAATATTTTACTTATCGGAGGG
ACATCGAGTGTACTTGGTATTAAAGTTCGTTTGCGTGACGAATTGAGGAAGTTATTGAAA
TCAGATATTTATAAAGATCGATTATATATCGATGATGTTAAATTTCATAGTGCTCCAGCA
AAACCCAATTTCACTGCATGGCTTGGAGGATCAATTTATTCTCATACAGATCTTATTTCA
AACTCAATCACCCGAGAAAGTTATTTTAAACATCCACGCATTCCCGACTGGACAACATAT
GATAGCTCTATAACTCGCTCACAAGGATGA
>g4079.t10 Gene=g4079 Length=170
MSRALSYRNNEQLQAAPDVEYPIEGSDVIKIPGLLREMAFEALFPEDNDFMGLPYIIIDA
ILKCPVDARKELAENILLIGGTSSVLGIKVRLRDELRKLLKSDIYKDRLYIDDVKFHSAP
AKPNFTAWLGGSIYSHTDLISNSITRESYFKHPRIPDWTTYDSSITRSQG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4079.t10 | Gene3D | G3DSA:3.90.640.10 | Actin; Chain A | 10 | 48 | 0 |
| 6 | g4079.t10 | Gene3D | G3DSA:3.30.420.40 | - | 49 | 132 | 0 |
| 2 | g4079.t10 | PANTHER | PTHR11937:SF14 | ACTIN-RELATED PROTEIN 10 | 35 | 162 | 0 |
| 3 | g4079.t10 | PANTHER | PTHR11937 | ACTIN | 35 | 162 | 0 |
| 1 | g4079.t10 | Pfam | PF00022 | Actin | 46 | 149 | 0 |
| 4 | g4079.t10 | SUPERFAMILY | SSF53067 | Actin-like ATPase domain | 8 | 152 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
