General information for g4417.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as F-actin-capping protein subunit beta.
Parent gene
- The parent gene g4417 is located on chr_2: 2050394..2052503 (- 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 | g4417 | g4417.t3 | isoform | g4417.t3 | 2048665 | 2049871 |
| chr_2 | g4417 | g4417.t3 | exon | g4417.t3.exon1 | 2048665 | 2049448 |
| chr_2 | g4417 | g4417.t3 | TTS | g4417.t3 | 2048676 | 2048676 |
| chr_2 | g4417 | g4417.t3 | cds | g4417.t3.CDS1 | 2049212 | 2049448 |
| chr_2 | g4417 | g4417.t3 | exon | g4417.t3.exon2 | 2049517 | 2049871 |
| chr_2 | g4417 | g4417.t3 | cds | g4417.t3.CDS2 | 2049517 | 2049843 |
| chr_2 | g4417 | g4417.t3 | TSS | g4417.t3 | 2050554 | 2050554 |
Sequences
>g4417.t3 Gene=g4417 Length=1139
TTATGATCCGCCTCTTGAAGATGGCTCAATGCCTTCAGAGCGACTGAGAAAATTAGAAAT
TGAAGCCAATCATGCGTTCGACCAATATCGTGAAATGTATTATGAAGGTGGTGTGTCGTC
TGCTTATCTTTGGGATTTAGATCACGGTTTTGCTGGTGTGATTTTAATTAAAAAAGCTGG
AGATGGAAATAAAAAAATCAAAGGTTGTTGGGACTCAATTCATGTTGTTGAAGTTCAAGA
AAAGAGTTCAGGAAGAACAGCACATTATAAACTAACATCGACTGCAATGTTATGGCTTCA
AACACATAAACAAGCGTCGGGAACGATGAATTTAGGCGGAAGTTTAACAAGACAGATTGA
ACAAGACTGTCCTGTAAGTGAATCTTCACCTCATATTGCCAATATTGGGAGAATGATTGA
AGATATGGAAAATAAAATTCGAAACACTCTCAATGAGATTTACTTCGGCAAAACAAAAGA
TGTCGTAAATGGTCTACGATCAGTAGAAGTTTTAGCCGATCAAAAACAGAAAACTGCAAT
GAAACAAGATTTAGCAAATGCAATCATGAGAAGAAATGTCAAAGCAGAGTGAGTTTAACA
AGACTGTTGAATGGATTGTGGATTGTTGTTAATTTCACCTTTGTGTTTAGCTTCGAATTC
TAAAATTCATTATAAAAGCGTTAATCAAAACGACCGAACGAAAGACGAAAAAAATCCATT
CACTCATATGTGCTTTTTATCAAGCGATGAACAATACATTAAAAAACTTATTTTATTCCT
CAGTTTGATATTTTTTTAAAACTTTATAAATTTTTAAACGAGAGACATTAACAATTTTGG
CATTAATCACAGAAAAAGAGAGCACTTTAAAAATTTAATAAGACAAATGTTATTCGATTA
AAGTATTCCATAAAAAATGAGCGAAAACTAGTATAATAAGTGCATCTTTATCAAAGTTAA
ATGCACAATATTACGATAATTGAGCATAAAAAATTGTATCATTTTCTAATTTTATATACA
CCTTTAAATGCATTTCAATATTTTTTTTTATGTTTTACTTACTATTTTTCTTTTTGTAGT
GTTTAAATTAGAAAATGCAATTGAATAAAATTAAAGTTCTAATAACTTAGATTAAAGTC
>g4417.t3 Gene=g4417 Length=187
MPSERLRKLEIEANHAFDQYREMYYEGGVSSAYLWDLDHGFAGVILIKKAGDGNKKIKGC
WDSIHVVEVQEKSSGRTAHYKLTSTAMLWLQTHKQASGTMNLGGSLTRQIEQDCPVSESS
PHIANIGRMIEDMENKIRNTLNEIYFGKTKDVVNGLRSVEVLADQKQKTAMKQDLANAIM
RRNVKAE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4417.t3 | Coils | Coil | Coil | 123 | 143 | - |
| 6 | g4417.t3 | Gene3D | G3DSA:2.40.160.80 | - | 3 | 157 | 1.7E-74 |
| 2 | g4417.t3 | PANTHER | PTHR10619 | F-ACTIN-CAPPING PROTEIN SUBUNIT BETA | 1 | 177 | 1.3E-84 |
| 4 | g4417.t3 | PRINTS | PR00192 | F-actin capping protein beta subunit signature | 10 | 37 | 1.5E-26 |
| 3 | g4417.t3 | PRINTS | PR00192 | F-actin capping protein beta subunit signature | 125 | 151 | 1.5E-26 |
| 1 | g4417.t3 | Pfam | PF01115 | F-actin capping protein, beta subunit | 1 | 153 | 7.3E-66 |
| 5 | g4417.t3 | SUPERFAMILY | SSF90096 | Subunits of heterodimeric actin filament capping protein Capz | 2 | 182 | 5.23E-60 |
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:0051016 | barbed-end actin filament capping | BP |
| GO:0008290 | F-actin capping protein complex | CC |
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.
