General information for g3883.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Dual specificity mitogen-activated protein kinase kinase 4.
Parent gene
- The parent gene g3883 is located on chr_3: 28611835..28612745 (+ 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_3 | g3883 | g3883.t2 | TSS | g3883.t2 | 28611026 | 28611026 |
| chr_3 | g3883 | g3883.t2 | isoform | g3883.t2 | 28611269 | 28611757 |
| chr_3 | g3883 | g3883.t2 | exon | g3883.t2.exon1 | 28611269 | 28611357 |
| chr_3 | g3883 | g3883.t2 | cds | g3883.t2.CDS1 | 28611269 | 28611357 |
| chr_3 | g3883 | g3883.t2 | exon | g3883.t2.exon2 | 28611485 | 28611564 |
| chr_3 | g3883 | g3883.t2 | cds | g3883.t2.CDS2 | 28611485 | 28611564 |
| chr_3 | g3883 | g3883.t2 | exon | g3883.t2.exon3 | 28611622 | 28611757 |
| chr_3 | g3883 | g3883.t2 | cds | g3883.t2.CDS3 | 28611622 | 28611755 |
| chr_3 | g3883 | g3883.t2 | TTS | g3883.t2 | NA | NA |
Sequences
>g3883.t2 Gene=g3883 Length=305
ATGGATAACGACAGTAAAAAAGCACTTAAATTAGTTTTCCCGAGTCAATCAAGAACAGCC
CATAGGCCCCATCAATCGCTACCTACAAATCGTGATCGATTTCGTAATGCTCATTCGGAT
TCTGGAAAATTGCAATTTAGCAGTACTGAGATATATGATTTTACAGCAGACGATCTCTTA
GACCTTGGTGAAATCGGAAGAGGCGGTTTTGGAAGTGTTAATAAAATGATTTTTAAGAAA
ACAGAAAAAGTAATGGCAGTTAAAAGAATACGATGTTCTAATGTTGTTGATGAGAAGGAG
CAAAA
>g3883.t2 Gene=g3883 Length=101
MDNDSKKALKLVFPSQSRTAHRPHQSLPTNRDRFRNAHSDSGKLQFSSTEIYDFTADDLL
DLGEIGRGGFGSVNKMIFKKTEKVMAVKRIRCSNVVDEKEQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3883.t2 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 37 | 101 | 9.7E-16 |
| 6 | g3883.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 41 | - |
| 5 | g3883.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 25 | 39 | - |
| 1 | g3883.t2 | PANTHER | PTHR48013 | DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 5-RELATED | 20 | 101 | 8.4E-21 |
| 2 | g3883.t2 | PANTHER | PTHR48013:SF15 | DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 4 | 20 | 101 | 8.4E-21 |
| 4 | g3883.t2 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 65 | 88 | - |
| 3 | g3883.t2 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 41 | 99 | 6.39E-8 |
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:0005524 | ATP 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.
