General information for g4530.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t8 | isoform | g4530.t8 | 3099480 | 3104763 |
| chr_2 | g4530 | g4530.t8 | exon | g4530.t8.exon1 | 3099480 | 3101123 |
| chr_2 | g4530 | g4530.t8 | TTS | g4530.t8 | 3099488 | 3099488 |
| chr_2 | g4530 | g4530.t8 | cds | g4530.t8.CDS1 | 3101026 | 3101123 |
| chr_2 | g4530 | g4530.t8 | exon | g4530.t8.exon2 | 3101223 | 3101376 |
| chr_2 | g4530 | g4530.t8 | cds | g4530.t8.CDS2 | 3101223 | 3101376 |
| chr_2 | g4530 | g4530.t8 | exon | g4530.t8.exon3 | 3104653 | 3104763 |
| chr_2 | g4530 | g4530.t8 | cds | g4530.t8.CDS3 | 3104653 | 3104763 |
| chr_2 | g4530 | g4530.t8 | TSS | g4530.t8 | 3105043 | 3105043 |
Sequences
>g4530.t8 Gene=g4530 Length=1909
ATGAGTTGGCAAGATTATGTAGATAACCAATTAATAGCATCACAGTGCGTATCAAAGGCC
TGCATTTCTGGCCACGACGGAGGTATTTGGGCGAAATCAGAAGGTTTTGAGGTAACAAAG
GAAGAACTCGCCAAATTAGTACAAGGCTTTGATAAAACTGAAATTTTAACGTCAGGCGGA
GTAACACTCGCCGGACAACGTCACATTTACCTCTCTGGAACAGATCGTGTTATTCGTGCG
AAGTTGGGTAAAGTTGGTGTTCACTCTGTAATTGTTGCAATTTATGAAGAGCCAGTTCAG
CCACAACAGGCTGCTTCCGTCGTTGAGAAACTTGGAGACTATTTGATCACATGTGGTTAT
TAGAGGTAAGGCATCATCGCGCAAATTAGAACACACACGCATTTGTCCGCCCAGCCAAGT
CAGCACCCCCAAAATTCAATAAAAACAAAATACTATAAACACAACATCAACAAAACATTT
GCAGAAAAGAAGAAAAAACTATCAATAATAATCGCAATTTTGCATACATTTAAAATGAAT
TTTTTTTGTTTCATCGTGTGATTGATTGAAGATTTGACATTCTTCCAAGCACACATCAAA
AAACATCCTTAAATAAAAAATATACATATTCATCTTATCCCCACAATTTACATTTATATA
AATACATGTATAAAAGAATATTTAAAGCTCATTTTATCTGAATGGAATTTTTTAAATCAT
TCTCTTTTCATTTTGAGTTTTTCGTATGAGATTTTTGAATTTTTTTCTATGTATAACCAA
ATTCTCGTGAATAAATTGAAATTCGATTCATTTTTGTGATCGCTTAGAAAGAAAACAACT
GACAAAATTTTGAGTAAAAAGTTTTTTTTATACAAGACTTGCTTTTAGTTTTATGAATCC
CTTTTATATCTTCTCTTTATTTTATGTGAGCTAGATAAATAATATACATATATTCCTTTG
ACAAATTACCTAAGATTTCTTTTCATAAATAATATTCGTGTACTGTAAAAGTAATTTATG
AGCAACAAGCAATTTTTTGAAATGTGCGTTTTCTCTCACAGTCAGTTCAAATGAATTCGC
ATTATGATTTGCGAATGCTCTTTGCTTCCCTCTCTCTCTATGCATATACAGCATTAAAAA
AGTAGAAAATTTTCAATTTTGGAAAGTTTAACAGAGATGATGGTTTGACAATGTCAACGC
ACTTTATTTTAGAAAGAATGCTGTTTAAATTAAATTTTTTTTTTGTAAAAGCTTGAACCG
CTTATATAAATTGACAATTCTTTCATTTTTTATATTTTATGTTATCAATAGTAGTATTCA
GCTTCTTTGCTCTTTCTTTCATTTTTGTATACGAAAAAATGCATCAACAGTAAAAACCGG
CCACCAATCGAATATTCGTTGGATGTCTTATGATATTTATTGTTTATTACATTTTTTCTT
TTTCATACCTCTCTCGTCTATCGAGATTTTCAAGCAAGGATTTTCTTTACTTCTTGCGCT
CATTCTTAATCTATAAAATTAAGTTGATTAGGAACACACTCGTTTTATTGATTGTTTTTT
ATTATTTTACAATTTTGTAATACGCTGCAAAAGAAGTAAAAAAGTCAATGTGGACTTATA
GCGTGCATATTTCGGCTCGAATAGTTAATAACTGATGAATTTGAATATTTTAAAGACGAT
TGTCATTAAATTGATTTTTTCAGTTTACTATTTAAGAATTTTCACGCTATTTTTTCATCT
TGAATAACTTGAAAAAAAGTAATGATGATGATGATGTAATTATTAATAATTATAATAATT
TTTTGAAAAAAAACTGATGAACAATCGGAAAATAGGAATGCATAAGAAGAAAGTATGTGA
GAAATAAAAAGTGGTTTTCTAATTAAATAAATAAACAGAAAAAATAGCT
>g4530.t8 Gene=g4530 Length=120
MSWQDYVDNQLIASQCVSKACISGHDGGIWAKSEGFEVTKEELAKLVQGFDKTEILTSGG
VTLAGQRHIYLSGTDRVIRAKLGKVGVHSVIVAIYEEPVQPQQAASVVEKLGDYLITCGY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g4530.t8 | CDD | cd00148 | PROF | 2 | 120 | 6.24643E-43 |
| 13 | g4530.t8 | Gene3D | G3DSA:3.30.450.30 | Dynein light chain 2a | 1 | 120 | 7.3E-34 |
| 2 | g4530.t8 | PANTHER | PTHR11604 | PROFILIN | 1 | 120 | 3.2E-31 |
| 3 | g4530.t8 | PANTHER | PTHR11604:SF0 | PROFILIN | 1 | 120 | 3.2E-31 |
| 6 | g4530.t8 | PRINTS | PR01640 | Plant profilin signature | 1 | 12 | 2.0E-10 |
| 10 | g4530.t8 | PRINTS | PR00392 | Profilin signature | 3 | 12 | 7.6E-18 |
| 9 | g4530.t8 | PRINTS | PR00392 | Profilin signature | 18 | 27 | 7.6E-18 |
| 5 | g4530.t8 | PRINTS | PR01640 | Plant profilin signature | 24 | 37 | 2.0E-10 |
| 7 | g4530.t8 | PRINTS | PR00392 | Profilin signature | 36 | 56 | 7.6E-18 |
| 8 | g4530.t8 | PRINTS | PR00392 | Profilin signature | 89 | 102 | 7.6E-18 |
| 11 | g4530.t8 | PRINTS | PR00392 | Profilin signature | 102 | 119 | 7.6E-18 |
| 4 | g4530.t8 | PRINTS | PR01640 | Plant profilin signature | 106 | 119 | 2.0E-10 |
| 1 | g4530.t8 | Pfam | PF00235 | Profilin | 1 | 120 | 2.5E-34 |
| 15 | g4530.t8 | ProSitePatterns | PS00414 | Profilin signature. | 1 | 8 | - |
| 16 | g4530.t8 | SMART | SM00392 | prof_2 | 1 | 120 | 1.3E-47 |
| 12 | g4530.t8 | SUPERFAMILY | SSF55770 | Profilin (actin-binding protein) | 2 | 120 | 1.23E-34 |
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.
