General information for g3883.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t6 | TSS | g3883.t6 | 28611026 | 28611026 |
| chr_3 | g3883 | g3883.t6 | isoform | g3883.t6 | 28611269 | 28612745 |
| chr_3 | g3883 | g3883.t6 | exon | g3883.t6.exon1 | 28611269 | 28611767 |
| chr_3 | g3883 | g3883.t6 | cds | g3883.t6.CDS1 | 28611678 | 28611767 |
| chr_3 | g3883 | g3883.t6 | exon | g3883.t6.exon2 | 28611824 | 28612431 |
| chr_3 | g3883 | g3883.t6 | cds | g3883.t6.CDS2 | 28611824 | 28612431 |
| chr_3 | g3883 | g3883.t6 | exon | g3883.t6.exon3 | 28612493 | 28612638 |
| chr_3 | g3883 | g3883.t6 | cds | g3883.t6.CDS3 | 28612493 | 28612638 |
| chr_3 | g3883 | g3883.t6 | exon | g3883.t6.exon4 | 28612693 | 28612745 |
| chr_3 | g3883 | g3883.t6 | cds | g3883.t6.CDS4 | 28612693 | 28612745 |
| chr_3 | g3883 | g3883.t6 | TTS | g3883.t6 | 28613023 | 28613023 |
Sequences
>g3883.t6 Gene=g3883 Length=1306
ATGGATAACGACAGTAAAAAAGCACTTAAATTAGTTTTCCCGAGTCAATCAAGAACAGCC
CATAGGCCCCATCAATCGCTACCTACAAAGTGAGTCATTTTCTTTGCCAGATAGTGCAAA
TAGAAATTCCCACGAATTATGAGTCTCTCTTATCATCATTGAGTTCCAACTATACAAAAA
ATTTTTTTCTCTTTCCCTCTCTTTAACATTTTTTAGTCGTGATCGATTTCGTAATGCTCA
TTCGGATTCTGGAAAATTGCAATTTAGCAGTACTGAGATATATGATTTTACAGCAGGTAC
ATTACTACCATTTCTTTTCCACATTGCCTATTTAATAATTAAAATATTTTTAGACGATCT
CTTAGACCTTGGTGAAATCGGAAGAGGCGGTTTTGGAAGTGTTAATAAAATGATTTTTAA
GAAAACAGAAAAAGTAATGGCAGTTAAAAGAATACGATGTTCTAATGTTGTTGATGAGAA
GGAGCAAAAAAGAATTATGGATCTGGATGTAGCAATGAAATCGTCTAATGATTGCAAATA
TATTGTACAATTTTATGGAGCTATTTTTAAAGAAGGAGATTGTTGGATTTGTATGGAAAT
TCTTTCTGTTTCCCTTGATAAATTCTATAAGTATGTCTATGAGAGACAAAATCAACGCAT
ACCTGAAAACATTCTTGGACAAATAACCGTTGCAACAGTAAACGCGTTAAATTATTTAAA
AGAAAAATTAAAAATCATCCATAGAGATGTTAAACCGAGCAACATTCTGCTTGCTGAGCG
TGGTGATATCAAGCTCTGTGATTTCGGTATTTCCGGACAATTGATTGATTCAATTGCAAG
AACTAAAGACGCTGGTTGTCGCCCCTATATGGCACCTGAGAGAATCGATCCAGAATTTTC
TCATAAAGGCTATGATGTTCGATCTGATGTCTGGTCACTTGGAATTACTTTAATGGAAGT
TGCGACTGGAAAATTTCCTTATCCTAGCAAATGGGCCTCAGTTTTTGAGCAATTATATCA
AGTTGTGCAAGGCCCACCTCCACAATTAACTCGCCAATATAATGGATTTGAATTTACTGA
AGAATTTTGTAATTTTGTTAATACTTGTCTGATAAAAGAGGAAAAGAATCGTCCAAAATA
TCAAACATTATTGCAACATAAATTTATTCAATTGCATGAAAAATTGCAGCCTTATGTTCA
TCCCGAAGTGGCAAGTTATATTTCAAATGTGTTAGAATCTATGTTCAATAATGGTATTAC
ACAATTCACAACAGATCAAGTTGTTGCTGGTGCAGTTTGCTGGTAA
>g3883.t6 Gene=g3883 Length=298
MIFKKTEKVMAVKRIRCSNVVDEKEQKRIMDLDVAMKSSNDCKYIVQFYGAIFKEGDCWI
CMEILSVSLDKFYKYVYERQNQRIPENILGQITVATVNALNYLKEKLKIIHRDVKPSNIL
LAERGDIKLCDFGISGQLIDSIARTKDAGCRPYMAPERIDPEFSHKGYDVRSDVWSLGIT
LMEVATGKFPYPSKWASVFEQLYQVVQGPPPQLTRQYNGFEFTEEFCNFVNTCLIKEEKN
RPKYQTLLQHKFIQLHEKLQPYVHPEVASYISNVLESMFNNGITQFTTDQVVAGAVCW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3883.t6 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 1 | 64 | 5.7E-20 |
| 8 | g3883.t6 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 66 | 276 | 1.9E-55 |
| 2 | g3883.t6 | PANTHER | PTHR48013 | DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 5-RELATED | 1 | 284 | 5.4E-139 |
| 3 | g3883.t6 | PANTHER | PTHR48013:SF15 | DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 4 | 1 | 284 | 5.4E-139 |
| 1 | g3883.t6 | Pfam | PF00069 | Protein kinase domain | 4 | 253 | 4.8E-48 |
| 6 | g3883.t6 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 109 | 121 | - |
| 9 | g3883.t6 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 1 | 253 | 36.485 |
| 5 | g3883.t6 | SMART | SM00220 | serkin_6 | 1 | 253 | 1.5E-46 |
| 4 | g3883.t6 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 3 | 276 | 1.25E-56 |
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 |
| GO:0004672 | protein kinase activity | MF |
| GO:0006468 | protein phosphorylation | BP |
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.
