General information for g10340.t4
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.t4 | isoform | g10340.t4 | 8942142 | 8944259 |
| chr_1 | g10340 | g10340.t4 | exon | g10340.t4.exon1 | 8942142 | 8942377 |
| chr_1 | g10340 | g10340.t4 | exon | g10340.t4.exon2 | 8942443 | 8942574 |
| chr_1 | g10340 | g10340.t4 | exon | g10340.t4.exon3 | 8943100 | 8944259 |
| chr_1 | g10340 | g10340.t4 | cds | g10340.t4.CDS1 | 8943237 | 8944259 |
| chr_1 | g10340 | g10340.t4 | TSS | g10340.t4 | NA | NA |
| chr_1 | g10340 | g10340.t4 | TTS | g10340.t4 | NA | NA |
Sequences
>g10340.t4 Gene=g10340 Length=1528
ATGAATGTAAGTTGAATAGTTTTGCAGAATATTAGCAATAAAAATGCTGCTTTTGTTAAA
ATTAACTGAATAAAAAATTTCAAATTCCGGCTGAGCAGCAGTAAAAAAAGTTGTTTCCCC
TGTCTGCCATTTGGAGGAAAAAAATTGCCGAAAAATTAAAATTCAGTTTTTTAAAAAGTT
TTAAACATATTTTGAGCCATTTTTAATAATTTGATAGAACAAGTGGGAGCTTAATGAGCT
AATTTCTTCTGTCATCCGCGAACGAGAGAGAGTATCTAATTCGTCGTCCATTTTGCTCAT
CCCAATCGAGTTTAGAAAATTTCAATTGAATTACTGAGAAGAAGTGCAAGCTAGCCCAAC
ATAAGAAGGAACTTCAACATCTACAGTCGGGAATAATAGTTCTCCACACTATCCGTTTAT
AGTCTCATCGAGCACTACCACCACAACAGCAACTAACACCGCAACATCAACGATAAATAT
TTTTAGTTATCGTCGCAGATCAACAATGACATTACCTTCAAATGCACGAGTGTATGCTGA
TGTCAATTCGCATAAGCCGCGAGAGTATTGGGATTATGAAAACTATGTTGTAGACTGGGC
AAATCAGGATGACTATCAATTAGTTAGAAAACTCGGTCGGGGTAAATATAGTGAAGTTTT
TGAGGCAATTAACGTCACCAATAATGAAAAGTGCGTCGTAAAAATCCTTAAACCAGTAAA
GAAGAAGAAGATCAAACGAGAAATCAAAATTCTAGAAAATTTGAGAGGTGGAACTAACAT
CATTACACTTCTTGCAGTTGTCAAAGATCCAGTTTCACGTACACCAGCGCTCATTTTCGA
GCATGTCAACAATACAGATTTTAAACAGCTCTATCAAACACTCACTGACTACGACATTCG
TTTCTATCTTTATGAGCTGTTGAAAGCATTAGATTATTGTCATAGTATGGGCATTATGCA
TCGCGATGTTAAGCCACATAATGTAATGATAGACCATGAGAATCGAAAGTTGCGACTAAT
TGATTGGGGTCTCGCTGAATTTTATCATCCGGGACAAGAGTACAATGTTCGAGTTGCTAG
TCGTTATTTCAAAGGACCCGAGTTGCTCGTCGATTATCAAATGTATGATTATTCATTGGA
TATGTGGTCACTTGGCTGCATGTTGGCTTCTATGATCTTTCGTAAAGAACCGTTCTTTCA
TGGTCATGATAATTACGATCAATTGGTGAGAATTGCAAAAGTTCTTGGTACTGAGGAGTT
ATATGCTTATTTGGATAAATACAATATTGAACTTGATCCGCGTTTCAATGACATCTTATC
GAGACATTCACGTAAAAGATGGGAGCGATTTGTTCATTCGGAAAATCAACATCTTGTATC
GCCAGAGGCTTTAGATTTTCTCGATAAGCTTCTTCGCTATGATCATTGTGCTCGATTAAC
TGCACGCGAAGCAATGGATCATCCATATTTTGCTGTTATCGTCAATGGACAATTACCACA
CGCGGGATCATTTAAAGGCAGCAATTAA
>g10340.t4 Gene=g10340 Length=340
MTLPSNARVYADVNSHKPREYWDYENYVVDWANQDDYQLVRKLGRGKYSEVFEAINVTNN
EKCVVKILKPVKKKKIKREIKILENLRGGTNIITLLAVVKDPVSRTPALIFEHVNNTDFK
QLYQTLTDYDIRFYLYELLKALDYCHSMGIMHRDVKPHNVMIDHENRKLRLIDWGLAEFY
HPGQEYNVRVASRYFKGPELLVDYQMYDYSLDMWSLGCMLASMIFRKEPFFHGHDNYDQL
VRIAKVLGTEELYAYLDKYNIELDPRFNDILSRHSRKRWERFVHSENQHLVSPEALDFLD
KLLRYDHCARLTAREAMDHPYFAVIVNGQLPHAGSFKGSN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g10340.t4 | CDD | cd14132 | STKc_CK2_alpha | 18 | 322 | 0.0 |
| 5 | g10340.t4 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 37 | 113 | 2.1E-111 |
| 6 | g10340.t4 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 114 | 322 | 2.1E-111 |
| 2 | g10340.t4 | PANTHER | PTHR24054 | CASEIN KINASE II SUBUNIT ALPHA | 3 | 330 | 3.2E-217 |
| 3 | g10340.t4 | PANTHER | PTHR24054:SF28 | CASEIN KINASE 2 ALPHA 1-RELATED | 3 | 330 | 3.2E-217 |
| 1 | g10340.t4 | Pfam | PF00069 | Protein kinase domain | 37 | 322 | 8.7E-69 |
| 9 | g10340.t4 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 43 | 66 | - |
| 8 | g10340.t4 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 150 | 162 | - |
| 11 | g10340.t4 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 37 | 322 | 43.439 |
| 10 | g10340.t4 | SMART | SM00220 | serkin_6 | 37 | 322 | 1.5E-73 |
| 4 | g10340.t4 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 8 | 323 | 2.56E-78 |
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 transcript has been annotated with K03097 (casein kinase II subunit alpha)
Pathway
- This transcript belongs to the following pathways
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.
