General information for g4530.t21
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Profilin.
Parent gene
- The parent gene g4530 is located on chr_2: 3104653..3105043 (- 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_2 | g4530 | g4530.t21 | isoform | g4530.t21 | 3100553 | 3104763 |
| chr_2 | g4530 | g4530.t21 | exon | g4530.t21.exon1 | 3100553 | 3101123 |
| chr_2 | g4530 | g4530.t21 | TTS | g4530.t21 | 3100558 | 3100558 |
| chr_2 | g4530 | g4530.t21 | cds | g4530.t21.CDS1 | 3101026 | 3101123 |
| chr_2 | g4530 | g4530.t21 | exon | g4530.t21.exon2 | 3101205 | 3101376 |
| chr_2 | g4530 | g4530.t21 | cds | g4530.t21.CDS2 | 3101205 | 3101376 |
| chr_2 | g4530 | g4530.t21 | exon | g4530.t21.exon3 | 3104716 | 3104763 |
| chr_2 | g4530 | g4530.t21 | cds | g4530.t21.CDS3 | 3104716 | 3104763 |
| chr_2 | g4530 | g4530.t21 | TSS | g4530.t21 | 3105043 | 3105043 |
Sequences
>g4530.t21 Gene=g4530 Length=791
ATGAGTTGGCAAGATTATGTAGATAACCAATTAATAGCATCACAGTGCGTAACAAAGGAA
GAACTCGCCAAATTAGTACAAGGCTTTGATAAAACTGAAATTTTAACGTCAGGCGGAGTA
ACACTCGCCGGACAACGTCACATTTACCTCTCTGGAACAGATCGTGTTATTCGTGCGAAG
TTGGGTAAAGTTGGTGTTCACTGTATGAAAACACAACAAGCTGTAATTGTTGCAATTTAT
GAAGAGCCAGTTCAGCCACAACAGGCTGCTTCCGTCGTTGAGAAACTTGGAGACTATTTG
ATCACATGTGGTTATTAGAGGTAAGGCATCATCGCGCAAATTAGAACACACACGCATTTG
TCCGCCCAGCCAAGTCAGCACCCCCAAAATTCAATAAAAACAAAATACTATAAACACAAC
ATCAACAAAACATTTGCAGAAAAGAAGAAAAAACTATCAATAATAATCGCAATTTTGCAT
ACATTTAAAATGAATTTTTTTTGTTTCATCGTGTGATTGATTGAAGATTTGACATTCTTC
CAAGCACACATCAAAAAACATCCTTAAATAAAAAATATACATATTCATCTTATCCCCACA
ATTTACATTTATATAAATACATGTATAAAAGAATATTTAAAGCTCATTTTATCTGAATGG
AATTTTTTAAATCATTCTCTTTTCATTTTGAGTTTTTCGTATGAGATTTTTGAATTTTTT
TCTATGTATAACCAAATTCTCGTGAATAAATTGAAATTCGATTCATTTTTGTGATCGCTT
AGAAAGAAAAC
>g4530.t21 Gene=g4530 Length=105
MSWQDYVDNQLIASQCVTKEELAKLVQGFDKTEILTSGGVTLAGQRHIYLSGTDRVIRAK
LGKVGVHCMKTQQAVIVAIYEEPVQPQQAASVVEKLGDYLITCGY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4530.t21 | CDD | cd00148 | PROF | 2 | 105 | 4.58319E-37 |
| 7 | g4530.t21 | Gene3D | G3DSA:3.30.450.30 | Dynein light chain 2a | 1 | 105 | 7.7E-25 |
| 2 | g4530.t21 | PANTHER | PTHR11604 | PROFILIN | 16 | 105 | 6.0E-24 |
| 3 | g4530.t21 | PANTHER | PTHR11604:SF0 | PROFILIN | 16 | 105 | 6.0E-24 |
| 1 | g4530.t21 | Pfam | PF00235 | Profilin | 17 | 105 | 1.4E-24 |
| 6 | g4530.t21 | ProSitePatterns | PS00414 | Profilin signature. | 1 | 8 | - |
| 5 | g4530.t21 | SMART | SM00392 | prof_2 | 1 | 105 | 3.1E-32 |
| 4 | g4530.t21 | SUPERFAMILY | SSF55770 | Profilin (actin-binding protein) | 2 | 105 | 1.96E-27 |
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:0003779 | actin 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. There were no conditions that were differentially expressed