General information for g2642.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Calcium/calmodulin-dependent protein kinase type II alpha chain.
Parent gene
- The parent gene g2642 is located on chr_3: 19274327..19278541 (- 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 | g2642 | g2642.t1 | TTS | g2642.t1 | 19274177 | 19274177 |
| chr_3 | g2642 | g2642.t1 | isoform | g2642.t1 | 19274327 | 19275072 |
| chr_3 | g2642 | g2642.t1 | exon | g2642.t1.exon1 | 19274327 | 19274361 |
| chr_3 | g2642 | g2642.t1 | cds | g2642.t1.CDS1 | 19274327 | 19274361 |
| chr_3 | g2642 | g2642.t1 | exon | g2642.t1.exon2 | 19274435 | 19274547 |
| chr_3 | g2642 | g2642.t1 | cds | g2642.t1.CDS2 | 19274435 | 19274547 |
| chr_3 | g2642 | g2642.t1 | exon | g2642.t1.exon3 | 19274672 | 19274786 |
| chr_3 | g2642 | g2642.t1 | cds | g2642.t1.CDS3 | 19274672 | 19274786 |
| chr_3 | g2642 | g2642.t1 | exon | g2642.t1.exon4 | 19274866 | 19274960 |
| chr_3 | g2642 | g2642.t1 | cds | g2642.t1.CDS4 | 19274866 | 19274960 |
| chr_3 | g2642 | g2642.t1 | exon | g2642.t1.exon5 | 19275020 | 19275072 |
| chr_3 | g2642 | g2642.t1 | cds | g2642.t1.CDS5 | 19275020 | 19275072 |
| chr_3 | g2642 | g2642.t1 | TSS | g2642.t1 | NA | NA |
Sequences
>g2642.t1 Gene=g2642 Length=411
ATGACTGAACAATTGATTGAAGCCATAAATAATGGTGATTTTGATGCATATACCAAAATA
TGTGATCCTCATGTAACTGCATTCGAGCCAGAATCGCTTGGTAATTTAGTAGAGGGAATG
GACTTTCATAAATTCTATTTTGAGAATGTGCTAGGAAAGAATTGCAAGGCTATTAATACA
ACCATTCTAAATCCTCATGTTCATCTATTGGGCGATGAAACTGCATGTATTGCATATGTT
CGACTAACTCAATACATTGATAAACAAGGTCACGCTCACACTCATCAATCGGAAGAGACT
CGTGTTTGGCACAAGCGTGATGGAAAATGGCAGAACGTTCACATTCATCGTAGCTATACA
GGCAATTTGAGTGGAGCAACACCATTTGATTTTGGTCACGGTAGTAAATGA
>g2642.t1 Gene=g2642 Length=136
MTEQLIEAINNGDFDAYTKICDPHVTAFEPESLGNLVEGMDFHKFYFENVLGKNCKAINT
TILNPHVHLLGDETACIAYVRLTQYIDKQGHAHTHQSEETRVWHKRDGKWQNVHIHRSYT
GNLSGATPFDFGHGSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2642.t1 | Gene3D | G3DSA:3.10.450.50 | - | 1 | 123 | 0 |
| 2 | g2642.t1 | PANTHER | PTHR24347 | SERINE/THREONINE-PROTEIN KINASE | 1 | 101 | 0 |
| 3 | g2642.t1 | PANTHER | PTHR24347:SF398 | CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE TYPE II SUBUNIT GAMMA | 1 | 101 | 0 |
| 1 | g2642.t1 | Pfam | PF08332 | Calcium/calmodulin dependent protein kinase II association domain | 1 | 119 | 0 |
| 4 | g2642.t1 | SUPERFAMILY | SSF54427 | NTF2-like | 2 | 118 | 0 |
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:0004683 | calmodulin-dependent protein kinase activity | MF |
| GO:0006468 | protein phosphorylation | BP |
| GO:0005516 | calmodulin 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.
