General information for g10340.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Casein kinase II subunit alpha.
Parent gene
- The parent gene g10340 is located on chr_1: 8943421..8944999 (+ 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 | g10340 | g10340.t7 | isoform | g10340.t7 | 8943421 | 8944421 |
| chr_1 | g10340 | g10340.t7 | exon | g10340.t7.exon1 | 8943421 | 8944421 |
| chr_1 | g10340 | g10340.t7 | cds | g10340.t7.CDS1 | 8943678 | 8944259 |
| chr_1 | g10340 | g10340.t7 | TSS | g10340.t7 | NA | NA |
| chr_1 | g10340 | g10340.t7 | TTS | g10340.t7 | NA | NA |
Sequences
>g10340.t7 Gene=g10340 Length=1001
AGTGCGTCGTAAAAATCCTTAAACCAGTAAAGAAGAAGAAGATCAAACGAGAAATCAAAA
TTCTAGAAAATTTGAGAGGTGGAACTAACATCATTACACTTCTTGCAGTTGTCAAAGATC
CAGTTTCACGTACACCAGCGCTCATTTTCGAGCATGTCAACAATACAGATTTTAAACAGC
TCTATCAAACACTCACTGACTACGACATTCGTTTCTATCTTTATGAGCTGTTGAAAGCAT
TAGATTATTGTCATAGTATGGGCATTATGCATCGCGATGTTAAGCCACATAATGTAATGA
TAGACCATGAGAATCGAAAGTTGCGACTAATTGATTGGGGTCTCGCTGAATTTTATCATC
CGGGACAAGAGTACAATGTTCGAGTTGCTAGTCGTTATTTCAAAGGACCCGAGTTGCTCG
TCGATTATCAAATGTATGATTATTCATTGGATATGTGGTCACTTGGCTGCATGTTGGCTT
CTATGATCTTTCGTAAAGAACCGTTCTTTCATGGTCATGATAATTACGATCAATTGGTGA
GAATTGCAAAAGTTCTTGGTACTGAGGAGTTATATGCTTATTTGGATAAATACAATATTG
AACTTGATCCGCGTTTCAATGACATCTTATCGAGACATTCACGTAAAAGATGGGAGCGAT
TTGTTCATTCGGAAAATCAACATCTTGTATCGCCAGAGGCTTTAGATTTTCTCGATAAGC
TTCTTCGCTATGATCATTGTGCTCGATTAACTGCACGCGAAGCAATGGATCATCCATATT
TTGCTGTTATCGTCAATGGACAATTACCACACGCGGGATCATTTAAAGGCAGCAATTAAT
AGACTACTACTATATAAAATTATTTCTTTCTTTTGCTACTACAACAATTTGCGCATCACT
GTGCTCCTTTCGATGGCGGTCAATGATCATCATCTTAATTCTTTATTTTGTCAATAATAA
TCACATAATTTTTTTCAATTTAACAAAATGAAATTATTTTT
>g10340.t7 Gene=g10340 Length=193
MGIMHRDVKPHNVMIDHENRKLRLIDWGLAEFYHPGQEYNVRVASRYFKGPELLVDYQMY
DYSLDMWSLGCMLASMIFRKEPFFHGHDNYDQLVRIAKVLGTEELYAYLDKYNIELDPRF
NDILSRHSRKRWERFVHSENQHLVSPEALDFLDKLLRYDHCARLTAREAMDHPYFAVIVN
GQLPHAGSFKGSN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10340.t7 | CDD | cd14132 | STKc_CK2_alpha | 1 | 175 | 3.97098E-140 |
| 5 | g10340.t7 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 1 | 179 | 1.6E-59 |
| 2 | g10340.t7 | PANTHER | PTHR24054 | CASEIN KINASE II SUBUNIT ALPHA | 1 | 183 | 5.1E-123 |
| 3 | g10340.t7 | PANTHER | PTHR24054:SF16 | CASEIN KINASE II SUBUNIT ALPHA-RELATED | 1 | 183 | 5.1E-123 |
| 1 | g10340.t7 | Pfam | PF00069 | Protein kinase domain | 1 | 175 | 4.5E-40 |
| 7 | g10340.t7 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 3 | 15 | - |
| 9 | g10340.t7 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 1 | 175 | 27.425 |
| 8 | g10340.t7 | SMART | SM00220 | serkin_6 | 1 | 175 | 4.0E-8 |
| 4 | g10340.t7 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 1 | 176 | 5.13E-46 |
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.
