General information for g10340.t1
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.t1 | isoform | g10340.t1 | 8942142 | 8944259 |
| chr_1 | g10340 | g10340.t1 | exon | g10340.t1.exon1 | 8942142 | 8942147 |
| chr_1 | g10340 | g10340.t1 | cds | g10340.t1.CDS1 | 8942142 | 8942147 |
| chr_1 | g10340 | g10340.t1 | exon | g10340.t1.exon2 | 8942359 | 8942377 |
| chr_1 | g10340 | g10340.t1 | cds | g10340.t1.CDS2 | 8942359 | 8942377 |
| chr_1 | g10340 | g10340.t1 | exon | g10340.t1.exon3 | 8942443 | 8942515 |
| chr_1 | g10340 | g10340.t1 | cds | g10340.t1.CDS3 | 8942443 | 8942515 |
| chr_1 | g10340 | g10340.t1 | exon | g10340.t1.exon4 | 8942996 | 8944259 |
| chr_1 | g10340 | g10340.t1 | cds | g10340.t1.CDS4 | 8942996 | 8944259 |
| chr_1 | g10340 | g10340.t1 | TSS | g10340.t1 | NA | NA |
| chr_1 | g10340 | g10340.t1 | TTS | g10340.t1 | NA | NA |
Sequences
>g10340.t1 Gene=g10340 Length=1362
ATGAATAACAAGTGGGAGCTTAATGAGCTAATTTCTTCTGTCATCCGCGAACGAGAGAGA
GTATCTAATTCGTCGTCCATTTTGCTCATCCCAATCGACCTATCTTTGCTTGCTCGCGGC
CTTCAGCATACGTCTACATCTGCTATACAACAACTGTACAAAAGATTTTTAATTGCAACA
TCATCAATTATCTCATCATTAGGAACTTCAACATCTACAGTCGGGAATAATAGTTCTCCA
CACTATCCGTTTATAGTCTCATCGAGCACTACCACCACAACAGCAACTAACACCGCAACA
TCAACGATAAATATTTTTAGTTATCGTCGCAGATCAACAATGACATTACCTTCAAATGCA
CGAGTGTATGCTGATGTCAATTCGCATAAGCCGCGAGAGTATTGGGATTATGAAAACTAT
GTTGTAGACTGGGCAAATCAGGATGACTATCAATTAGTTAGAAAACTCGGTCGGGGTAAA
TATAGTGAAGTTTTTGAGGCAATTAACGTCACCAATAATGAAAAGTGCGTCGTAAAAATC
CTTAAACCAGTAAAGAAGAAGAAGATCAAACGAGAAATCAAAATTCTAGAAAATTTGAGA
GGTGGAACTAACATCATTACACTTCTTGCAGTTGTCAAAGATCCAGTTTCACGTACACCA
GCGCTCATTTTCGAGCATGTCAACAATACAGATTTTAAACAGCTCTATCAAACACTCACT
GACTACGACATTCGTTTCTATCTTTATGAGCTGTTGAAAGCATTAGATTATTGTCATAGT
ATGGGCATTATGCATCGCGATGTTAAGCCACATAATGTAATGATAGACCATGAGAATCGA
AAGTTGCGACTAATTGATTGGGGTCTCGCTGAATTTTATCATCCGGGACAAGAGTACAAT
GTTCGAGTTGCTAGTCGTTATTTCAAAGGACCCGAGTTGCTCGTCGATTATCAAATGTAT
GATTATTCATTGGATATGTGGTCACTTGGCTGCATGTTGGCTTCTATGATCTTTCGTAAA
GAACCGTTCTTTCATGGTCATGATAATTACGATCAATTGGTGAGAATTGCAAAAGTTCTT
GGTACTGAGGAGTTATATGCTTATTTGGATAAATACAATATTGAACTTGATCCGCGTTTC
AATGACATCTTATCGAGACATTCACGTAAAAGATGGGAGCGATTTGTTCATTCGGAAAAT
CAACATCTTGTATCGCCAGAGGCTTTAGATTTTCTCGATAAGCTTCTTCGCTATGATCAT
TGTGCTCGATTAACTGCACGCGAAGCAATGGATCATCCATATTTTGCTGTTATCGTCAAT
GGACAATTACCACACGCGGGATCATTTAAAGGCAGCAATTAA
>g10340.t1 Gene=g10340 Length=453
MNNKWELNELISSVIRERERVSNSSSILLIPIDLSLLARGLQHTSTSAIQQLYKRFLIAT
SSIISSLGTSTSTVGNNSSPHYPFIVSSSTTTTTATNTATSTINIFSYRRRSTMTLPSNA
RVYADVNSHKPREYWDYENYVVDWANQDDYQLVRKLGRGKYSEVFEAINVTNNEKCVVKI
LKPVKKKKIKREIKILENLRGGTNIITLLAVVKDPVSRTPALIFEHVNNTDFKQLYQTLT
DYDIRFYLYELLKALDYCHSMGIMHRDVKPHNVMIDHENRKLRLIDWGLAEFYHPGQEYN
VRVASRYFKGPELLVDYQMYDYSLDMWSLGCMLASMIFRKEPFFHGHDNYDQLVRIAKVL
GTEELYAYLDKYNIELDPRFNDILSRHSRKRWERFVHSENQHLVSPEALDFLDKLLRYDH
CARLTAREAMDHPYFAVIVNGQLPHAGSFKGSN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g10340.t1 | CDD | cd14132 | STKc_CK2_alpha | 131 | 435 | 0.0 |
| 5 | g10340.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 136 | 221 | 5.8E-40 |
| 6 | g10340.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 222 | 439 | 1.6E-71 |
| 2 | g10340.t1 | PANTHER | PTHR24054 | CASEIN KINASE II SUBUNIT ALPHA | 116 | 443 | 7.7E-217 |
| 3 | g10340.t1 | PANTHER | PTHR24054:SF28 | CASEIN KINASE 2 ALPHA 1-RELATED | 116 | 443 | 7.7E-217 |
| 1 | g10340.t1 | Pfam | PF00069 | Protein kinase domain | 150 | 435 | 2.2E-68 |
| 9 | g10340.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 156 | 179 | - |
| 8 | g10340.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 263 | 275 | - |
| 11 | g10340.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 150 | 435 | 43.439 |
| 10 | g10340.t1 | SMART | SM00220 | serkin_6 | 150 | 435 | 1.5E-73 |
| 4 | g10340.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 121 | 436 | 7.01E-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.
