General information for g4417.t1
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.t1 | TTS | g4417.t1 | 2048676 | 2048676 |
| chr_2 | g4417 | g4417.t1 | isoform | g4417.t1 | 2049141 | 2050404 |
| chr_2 | g4417 | g4417.t1 | exon | g4417.t1.exon1 | 2049141 | 2049153 |
| chr_2 | g4417 | g4417.t1 | cds | g4417.t1.CDS1 | 2049141 | 2049153 |
| chr_2 | g4417 | g4417.t1 | exon | g4417.t1.exon2 | 2049216 | 2049448 |
| chr_2 | g4417 | g4417.t1 | cds | g4417.t1.CDS2 | 2049216 | 2049448 |
| chr_2 | g4417 | g4417.t1 | exon | g4417.t1.exon3 | 2049517 | 2050101 |
| chr_2 | g4417 | g4417.t1 | cds | g4417.t1.CDS3 | 2049517 | 2050101 |
| chr_2 | g4417 | g4417.t1 | exon | g4417.t1.exon4 | 2050402 | 2050404 |
| chr_2 | g4417 | g4417.t1 | cds | g4417.t1.CDS4 | 2050402 | 2050404 |
| chr_2 | g4417 | g4417.t1 | TSS | g4417.t1 | 2050554 | 2050554 |
Sequences
>g4417.t1 Gene=g4417 Length=834
ATGAGTGACTTACAAATGGATTGCGCTTTGGATTTAATGAGGCGTTTACCACCACAACAA
ATTGAAAAAAATCTAATTGATTTAATTGATTTAGCACCCGCATTATGCGAGGATTTGCTC
ACATCTGTGGATCAGCCATTAAAAATTGCCAAGGATAAAGAAACAGGAAAAGACTATTTA
TTATGTGATTATAATCGAGATGGTGACTCATATCGATCGCCTTGGTCAAATACTTATGAT
CCGCCTCTTGAAGATGGCTCAATGCCTTCAGAGCGACTGAGAAAATTAGAAATTGAAGCC
AATCATGCGTTCGACCAATATCGTGAAATGTATTATGAAGGTGGTGTGTCGTCTGCTTAT
CTTTGGGATTTAGATCACGGTTTTGCTGGTGTGATTTTAATTAAAAAAGCTGGAGATGGA
AATAAAAAAATCAAAGGTTGTTGGGACTCAATTCATGTTGTTGAAGTTCAAGAAAAGAGT
TCAGGAAGAACAGCACATTATAAACTAACATCGACTGCAATGTTATGGCTTCAAACACAT
AAACAAGCGTCGGGAACGATGAATTTAGGCGGAAGTTTAACAAGACAGATTGAACAAGAC
TGTCCTGTAAGTGAATCTTCACCTCATATTGCCAATATTGGGAGAATGATTGAAGATATG
GAAAATAAAATTCGAAACACTCTCAATGAGATTTACTTCGGCAAAACAAAAGATGTCGTA
AATGGTCTACGATCAGTAGAAGTTTTAGCCGATCAAAAACAGAAAACTGCAATGAAACAA
GATTTAGCAAATGCAATCATGAGAAGAAATGTCAAAGCAGACTTCGAATTCTAA
>g4417.t1 Gene=g4417 Length=277
MSDLQMDCALDLMRRLPPQQIEKNLIDLIDLAPALCEDLLTSVDQPLKIAKDKETGKDYL
LCDYNRDGDSYRSPWSNTYDPPLEDGSMPSERLRKLEIEANHAFDQYREMYYEGGVSSAY
LWDLDHGFAGVILIKKAGDGNKKIKGCWDSIHVVEVQEKSSGRTAHYKLTSTAMLWLQTH
KQASGTMNLGGSLTRQIEQDCPVSESSPHIANIGRMIEDMENKIRNTLNEIYFGKTKDVV
NGLRSVEVLADQKQKTAMKQDLANAIMRRNVKADFEF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g4417.t1 | Coils | Coil | Coil | 210 | 230 | - |
| 11 | g4417.t1 | Gene3D | G3DSA:1.20.58.570 | - | 1 | 89 | 5.8E-43 |
| 10 | g4417.t1 | Gene3D | G3DSA:2.40.160.80 | - | 90 | 244 | 5.7E-74 |
| 2 | g4417.t1 | PANTHER | PTHR10619 | F-ACTIN-CAPPING PROTEIN SUBUNIT BETA | 1 | 264 | 5.3E-136 |
| 7 | g4417.t1 | PRINTS | PR00192 | F-actin capping protein beta subunit signature | 5 | 25 | 1.5E-70 |
| 5 | g4417.t1 | PRINTS | PR00192 | F-actin capping protein beta subunit signature | 26 | 47 | 1.5E-70 |
| 3 | g4417.t1 | PRINTS | PR00192 | F-actin capping protein beta subunit signature | 57 | 83 | 1.5E-70 |
| 6 | g4417.t1 | PRINTS | PR00192 | F-actin capping protein beta subunit signature | 97 | 124 | 1.5E-70 |
| 4 | g4417.t1 | PRINTS | PR00192 | F-actin capping protein beta subunit signature | 212 | 238 | 1.5E-70 |
| 1 | g4417.t1 | Pfam | PF01115 | F-actin capping protein, beta subunit | 6 | 240 | 4.3E-109 |
| 9 | g4417.t1 | ProSitePatterns | PS00231 | F-actin capping protein beta subunit signature. | 62 | 67 | - |
| 8 | g4417.t1 | SUPERFAMILY | SSF90096 | Subunits of heterodimeric actin filament capping protein Capz | 4 | 269 | 1.96E-97 |
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 |
| GO:0030036 | actin cytoskeleton organization | BP |
| GO:0051016 | barbed-end actin filament capping | BP |
| GO:0005737 | cytoplasm | CC |
| GO:0008290 | F-actin capping protein complex | CC |
KEGG
Orthology
- This transcript has been annotated with K10365 (capping protein (actin filament) muscle Z-line, beta)
Pathway
- This transcript belongs to the following pathways
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.
