General information for g12056.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Dual specificity mitogen-activated protein kinase kinase 6.
Parent gene
- The parent gene g12056 is located on chr_1: 20680044..20682001 (- 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_1 | g12056 | g12056.t3 | isoform | g12056.t3 | 20680044 | 20680576 |
| chr_1 | g12056 | g12056.t3 | exon | g12056.t3.exon1 | 20680044 | 20680400 |
| chr_1 | g12056 | g12056.t3 | cds | g12056.t3.CDS1 | 20680044 | 20680400 |
| chr_1 | g12056 | g12056.t3 | exon | g12056.t3.exon2 | 20680462 | 20680576 |
| chr_1 | g12056 | g12056.t3 | cds | g12056.t3.CDS2 | 20680462 | 20680539 |
| chr_1 | g12056 | g12056.t3 | TSS | g12056.t3 | NA | NA |
| chr_1 | g12056 | g12056.t3 | TTS | g12056.t3 | NA | NA |
Sequences
>g12056.t3 Gene=g12056 Length=472
ATCAAATATTCTTATTAATCGTCGTGGTGAAGTAAAAATGTGTGACTTTGGTATTTCTGG
CTATTTGGTCGATAGTGTTGCTAAAACATTAGATGCTGGCTGTAAACCATACATGGCACC
TGAGCGAATTGATCCACAAGGCAGTGGTGTTTCGAATTATGATATTAAGAGCGATGTTTG
GTCTTTAGGAATAAGTTTAATTGAAATGGCAACGGGTAAATTTCCTTATGCAATTTGGAA
AACACCATTTGAACAGCTCAAGCAAGTCGTCACAGAAAAGTCACCATCTCTGCCACCAGA
TATGTTTACAAAACCATTTGAAAACTTAATCAATATCTGTCTTCAAAAAGAATTTACAAA
ACGTCCTAATTATGAACAGTTACTTGCCAATGATTTTATTGTCGAACACACAAAGAAAGA
AACTGATGTCGCTAAATTTGTTGAAGAAATTTTGGCTCTCGGAAGCCCATAA
>g12056.t3 Gene=g12056 Length=144
MCDFGISGYLVDSVAKTLDAGCKPYMAPERIDPQGSGVSNYDIKSDVWSLGISLIEMATG
KFPYAIWKTPFEQLKQVVTEKSPSLPPDMFTKPFENLINICLQKEFTKRPNYEQLLANDF
IVEHTKKETDVAKFVEEILALGSP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g12056.t3 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 1 | 141 | 0.0000 |
| 2 | g12056.t3 | PANTHER | PTHR48013:SF11 | LICORNE | 1 | 140 | 0.0000 |
| 3 | g12056.t3 | PANTHER | PTHR48013 | DUAL SPECIFICITY MITOGEN-ACTIVATED PROTEIN KINASE KINASE 5-RELATED | 1 | 140 | 0.0000 |
| 1 | g12056.t3 | Pfam | PF00069 | Protein kinase domain | 1 | 121 | 0.0000 |
| 7 | g12056.t3 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 1 | 121 | 19.1570 |
| 5 | g12056.t3 | SMART | SM00220 | serkin_6 | 1 | 121 | 0.0068 |
| 4 | g12056.t3 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 1 | 126 | 0.0000 |
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.
