General information for g4791.t3
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.t3 | TSS | g4791.t3 | 4985252 | 4985252 |
| chr_2 | g4791 | g4791.t3 | isoform | g4791.t3 | 4985387 | 4986058 |
| chr_2 | g4791 | g4791.t3 | exon | g4791.t3.exon1 | 4985387 | 4986058 |
| chr_2 | g4791 | g4791.t3 | cds | g4791.t3.CDS1 | 4985607 | 4986056 |
| chr_2 | g4791 | g4791.t3 | TTS | g4791.t3 | NA | NA |
Sequences
>g4791.t3 Gene=g4791 Length=672
AAATTAATGTAATTTAAATCCTTCTTTTTTTATAGGACTTCCAGATCCATTTGCTAAAGT
GATTGTAGATGGAGGTCAAGTTTTTACAACGGACGCTTGTAAAGCTACTGTTGATCCAAA
ATGGAGCTCACATTATGATCTGTTTTTAGCAAGAGGCGATGGCATAACGATATCAATATG
GAATCAGAAAAAAGTTCTCAAAAATTCGTCTAGCGGCTTTATGGGTTGCGTTCGAATAAC
TTCATCTACAGTTCAGCGACTAAAAGACACTGGATATCAAAGATTAGATTTGGGAAAAAT
TTCACCCGATGATCCGACACCCGTAAAGGGTCAAATAATTATTTCTCTTCTCTCTCGTGA
TGCTCTATCTGGTGCAGGCAATCCAATTGCAATTGTTGGTCCAGCTGGAGAAGTGCATGG
TCCAGATGAAGATGAAAATAATTCCACTACGACCACAACAACATCAAATAATTCTGAACA
GAAAAATACTAGCAATAATAATAATAATAATAATAATTCATCGAATCTACCGGAAGGTTG
GGAAGAAAGAAAGACAGCCGATGGTAGGAGTTATTATGTAAATCACGTTTCTAGAACAAC
ACAGTGGTCTCGTCCAACTCAGCCTGCATCGGTGGCTGCTGTAGCAAATACAGGAAATGC
ATCACCACAAAC
>g4791.t3 Gene=g4791 Length=150
MGCVRITSSTVQRLKDTGYQRLDLGKISPDDPTPVKGQIIISLLSRDALSGAGNPIAIVG
PAGEVHGPDEDENNSTTTTTTSNNSEQKNTSNNNNNNNNSSNLPEGWEERKTADGRSYYV
NHVSRTTQWSRPTQPASVAAVANTGNASPQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4791.t3 | CDD | cd00201 | WW | 104 | 133 | 1.11644E-13 |
| 5 | g4791.t3 | Gene3D | G3DSA:2.20.70.10 | - | 98 | 143 | 1.0E-16 |
| 10 | g4791.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 59 | 110 | - |
| 11 | g4791.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 72 | 106 | - |
| 9 | g4791.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 124 | 150 | - |
| 2 | g4791.t3 | PANTHER | PTHR11254:SF395 | E3 UBIQUITIN-PROTEIN LIGASE SMURF1 | 3 | 135 | 3.5E-24 |
| 3 | g4791.t3 | PANTHER | PTHR11254 | HECT DOMAIN UBIQUITIN-PROTEIN LIGASE | 3 | 135 | 3.5E-24 |
| 1 | g4791.t3 | Pfam | PF00397 | WW domain | 103 | 132 | 8.4E-13 |
| 7 | g4791.t3 | ProSitePatterns | PS01159 | WW/rsp5/WWP domain signature. | 107 | 132 | - |
| 12 | g4791.t3 | ProSiteProfiles | PS50020 | WW/rsp5/WWP domain profile. | 101 | 134 | 17.811 |
| 8 | g4791.t3 | SMART | SM00456 | ww_5 | 102 | 134 | 1.2E-13 |
| 4 | g4791.t3 | SUPERFAMILY | SSF51045 | WW domain | 98 | 135 | 4.75E-14 |
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:0005515 | protein 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.
