General information for g3844.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Casein kinase II subunit beta.
Parent gene
- The parent gene g3844 is located on chr_3: 28340721..28341651 (- 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 | g3844 | g3844.t3 | isoform | g3844.t3 | 28338758 | 28340007 |
| chr_3 | g3844 | g3844.t3 | exon | g3844.t3.exon1 | 28338758 | 28339287 |
| chr_3 | g3844 | g3844.t3 | exon | g3844.t3.exon2 | 28339353 | 28339461 |
| chr_3 | g3844 | g3844.t3 | cds | g3844.t3.CDS1 | 28339377 | 28339461 |
| chr_3 | g3844 | g3844.t3 | exon | g3844.t3.exon3 | 28339535 | 28340007 |
| chr_3 | g3844 | g3844.t3 | cds | g3844.t3.CDS2 | 28339535 | 28339941 |
| chr_3 | g3844 | g3844.t3 | TSS | g3844.t3 | 28340516 | 28340516 |
| chr_3 | g3844 | g3844.t3 | TTS | g3844.t3 | NA | NA |
Sequences
>g3844.t3 Gene=g3844 Length=1112
ATTCAGGATAAGTTTAATTTGACAGGACTAAATGAGCAAGTGCCCAACTATAGACAAGCG
CTTGATATGATTCTTGATCTTGAGCCAGATGAGGATGAAATTGATGTTAATCCAAATCAA
TCAGATCTAATTGAGCAAGCTGCTGAGATGCTATATGGGCTTATTCATGCACGCTACATT
TTAACAAATCGCGGAATCGCGCAAATGATTGAAAAATACCAGAGCGGCGACTTTGGTCAT
TGTCCACGCGTGTATTGTGAAAGTCAGCCAATGTTACCGTTAGGTCTTAGCGATGTTCCT
GGCGAAGCTATGGTTAAATCTTATTGCCCGAAATGCATAGACGTTTACACTCCAAAATCA
TCTCGCCACCATCATACTGATGGTGCCTATTTCGGCACTGGCTTTCCTCATATGTTGTTT
ATGGTTCATCCTGAATATCGACCAAAGCGACCTGCCAACCAATTTGTCCCAAGGTTGTAT
GGATTTAAAATTCACAATTTGGCTTATCAAATACAATTACAAGCTGCTGCGCAATTTAAA
CAGCCTAGAACAAACTAGCAATCTGAGAAGGTGAGAACGAAACGACTAATTAATAACAGT
ACTGAAGTTAGGCTTGTTTGAACATCAACCAAATAAATGAGAAATGGATAGAAGAATTTA
ATTAATTAAAATAGTTCTTCACTGATTGACATCATATTTAGTCGTATTTCCATAATTTGT
TAAAAGAGAAAAAATCAAAAAAGAAGAAGAAACAAGCCATTCACATAAACACACACACAC
ACAGACATCTTTTTTTCTCCATAAGTTTTGTCTATGTCAACATTATTTGAAATAATAAAT
ATCCTATTATTTAAAATGCTGTAATCCTCCTTTTCACATCCAATCTACAGTCATTGTTTT
CCTTCTATTTCCTCATTCACTTTTACTTGTGAAAATGGATATAATATGAAAATGACTTTA
AAGTAATAAAAATTGATATAATTATGATAATTGATTAAAGCATAAAAGAGTTATGATAAT
AATTATAAACTTGAGTATTTTTATTCTAATTTATTTTTTGTTGTTGATTTTTACACAAAA
GTATAGTAGTTAGTTGATGTTGATTTTAATTC
>g3844.t3 Gene=g3844 Length=163
MILDLEPDEDEIDVNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMIEKYQSGDFGHCP
RVYCESQPMLPLGLSDVPGEAMVKSYCPKCIDVYTPKSSRHHHTDGAYFGTGFPHMLFMV
HPEYRPKRPANQFVPRLYGFKIHNLAYQIQLQAAAQFKQPRTN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g3844.t3 | Gene3D | G3DSA:1.10.1820.10 | protein kinase ck2 holoenzyme | 1 | 55 | 8.7E-19 |
| 12 | g3844.t3 | Gene3D | G3DSA:2.20.25.20 | - | 56 | 130 | 2.2E-38 |
| 2 | g3844.t3 | PANTHER | PTHR11740:SF0 | CASEIN KINASE II SUBUNIT BETA | 1 | 155 | 1.3E-68 |
| 3 | g3844.t3 | PANTHER | PTHR11740 | CASEIN KINASE II SUBUNIT BETA | 1 | 155 | 1.3E-68 |
| 5 | g3844.t3 | PRINTS | PR00472 | Casein kinase II regulatory subunit family signature | 30 | 51 | 1.5E-49 |
| 6 | g3844.t3 | PRINTS | PR00472 | Casein kinase II regulatory subunit family signature | 55 | 76 | 1.5E-49 |
| 4 | g3844.t3 | PRINTS | PR00472 | Casein kinase II regulatory subunit family signature | 77 | 98 | 1.5E-49 |
| 7 | g3844.t3 | PRINTS | PR00472 | Casein kinase II regulatory subunit family signature | 105 | 122 | 1.5E-49 |
| 1 | g3844.t3 | Pfam | PF01214 | Casein kinase II regulatory subunit | 2 | 141 | 9.0E-58 |
| 10 | g3844.t3 | ProSitePatterns | PS01101 | Casein kinase II regulatory subunit signature. | 59 | 90 | - |
| 9 | g3844.t3 | SMART | SM01085 | CK_II_beta_2 | 1 | 141 | 1.4E-77 |
| 8 | g3844.t3 | SUPERFAMILY | SSF57798 | Casein kinase II beta subunit | 2 | 151 | 1.7E-62 |
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:0019887 | protein kinase regulator activity | MF |
| GO:0005956 | protein kinase CK2 complex | CC |
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.
