General information for g4791.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative E3 ubiquitin-protein ligase SMURF1.
Parent gene
- The parent gene g4791 is located on chr_2: 4991936..4992659 (+ 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 | g4791 | g4791.t2 | TSS | g4791.t2 | 4983387 | 4983387 |
| chr_2 | g4791 | g4791.t2 | isoform | g4791.t2 | 4983706 | 4985732 |
| chr_2 | g4791 | g4791.t2 | exon | g4791.t2.exon1 | 4983706 | 4983748 |
| chr_2 | g4791 | g4791.t2 | cds | g4791.t2.CDS1 | 4983706 | 4983748 |
| chr_2 | g4791 | g4791.t2 | exon | g4791.t2.exon2 | 4983942 | 4983980 |
| chr_2 | g4791 | g4791.t2 | cds | g4791.t2.CDS2 | 4983942 | 4983980 |
| chr_2 | g4791 | g4791.t2 | exon | g4791.t2.exon3 | 4985422 | 4985732 |
| chr_2 | g4791 | g4791.t2 | cds | g4791.t2.CDS3 | 4985422 | 4985732 |
| chr_2 | g4791 | g4791.t2 | TTS | g4791.t2 | NA | NA |
Sequences
>g4791.t2 Gene=g4791 Length=393
ATGGATCGACGTAATGGAGCACACAGCAAAATTAGAATTACAATTCTTGGAGCAAGGAAT
CTCGCTCGAAAAGACTTGTTTAGACTTCCAGATCCATTTGCTAAAGTGATTGTAGATGGA
GGTCAAGTTTTTACAACGGACGCTTGTAAAGCTACTGTTGATCCAAAATGGAGCTCACAT
TATGATCTGTTTTTAGCAAGAGGCGATGGCATAACGATATCAATATGGAATCAGAAAAAA
GTTCTCAAAAATTCGTCTAGCGGCTTTATGGGTTGCGTTCGAATAACTTCATCTACAGTT
CAGCGACTAAAAGACACTGGATATCAAAGATTAGATTTGGGAAAAATTTCACCCGATGAT
CCGACACCCGTAAAGGGTCAAATAATTATTTCT
>g4791.t2 Gene=g4791 Length=131
MDRRNGAHSKIRITILGARNLARKDLFRLPDPFAKVIVDGGQVFTTDACKATVDPKWSSH
YDLFLARGDGITISIWNQKKVLKNSSSGFMGCVRITSSTVQRLKDTGYQRLDLGKISPDD
PTPVKGQIIIS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4791.t2 | CDD | cd08382 | C2_Smurf-like | 10 | 131 | 0.000 |
| 6 | g4791.t2 | Gene3D | G3DSA:2.60.40.150 | - | 6 | 131 | 0.000 |
| 2 | g4791.t2 | PANTHER | PTHR11254:SF293 | E3 UBIQUITIN-PROTEIN LIGASE SMURF1 | 2 | 131 | 0.000 |
| 3 | g4791.t2 | PANTHER | PTHR11254 | HECT DOMAIN UBIQUITIN-PROTEIN LIGASE | 2 | 131 | 0.000 |
| 1 | g4791.t2 | Pfam | PF00168 | C2 domain | 10 | 101 | 0.000 |
| 7 | g4791.t2 | ProSiteProfiles | PS50004 | C2 domain profile. | 9 | 94 | 10.264 |
| 5 | g4791.t2 | SMART | SM00239 | C2_3c | 10 | 112 | 0.000 |
| 4 | g4791.t2 | SUPERFAMILY | SSF49562 | C2 domain (Calcium/lipid-binding domain, CaLB) | 10 | 130 | 0.000 |
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.
