General information for g13984.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Casein kinase I isoform alpha.
Parent gene
- The parent gene g13984 is located on chr_1: 33808472..33831777 (+ 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 | g13984 | g13984.t2 | TSS | g13984.t2 | 33807423 | 33807423 |
| chr_1 | g13984 | g13984.t2 | isoform | g13984.t2 | 33807640 | 33811245 |
| chr_1 | g13984 | g13984.t2 | exon | g13984.t2.exon1 | 33807640 | 33808472 |
| chr_1 | g13984 | g13984.t2 | cds | g13984.t2.CDS1 | 33807640 | 33808472 |
| chr_1 | g13984 | g13984.t2 | exon | g13984.t2.exon2 | 33810999 | 33811245 |
| chr_1 | g13984 | g13984.t2 | cds | g13984.t2.CDS2 | 33810999 | 33811065 |
| chr_1 | g13984 | g13984.t2 | TTS | g13984.t2 | 33811246 | 33811246 |
Sequences
>g13984.t2 Gene=g13984 Length=1080
ATGTCGTTAATGTCAGATACGATGATTGGAAATAAGTATCGCGTTATACGAAAGATCGGG
AGTGGATCCTTCGGCGATATATTTCTAGGAATTAATATTACAAATGGCGAAGAAGTGGCT
CTTAAAGTCGAAAGTGTTATGGCTCGTCACCCACAACTGCTCTACGAATACAAATTGTAC
AAAGTTCTTAATGGTGGCGTAGGAATTCCACATATTAGATGTTTTACGCAAGAACGCAGC
TTTAACATCCTCGTTATGGATCTTCTCGGTCCCTCATTAGAAGATTTATTCAATTTCTGT
AGTCGTCATTTCACAATCAAGACCGTTCTCATGTTGGTCGATCAAATGATTGGTCGTTTA
GAATATTTACATGTAAAAAATTTCATTCATCGTGATATTAAACCAGACAACTTTTTAATG
GGCATTGGACGACATTGTAACAAGCTGTTTATGATCGACTTTGGTCTTGCCAAAAAATAT
CGCGACTTTCGCACGCGTACACACATTGTTTATCGCGAAGACAAAAACCTCACTGGAACA
GCCCGCTATGCATCAATTAATGCCCACTTGGGTATCGAGCAGTCGCGTCGCGATGATATG
GAATCATTAGGTTATGTTATGATGTATTTCAATCGGGGATCACTGCCTTGGCAAGGTTTA
AAGGCAACTAACAAGAAACAAAAGTACGAGAAAATATCCGAAAAGAAAATGTCAACGCCT
ATCGAGGTGCTCTGTAAAGGCTTCCCTGCCGAATTCGCAATGTATCTCAACTACTGTCGA
AGTTTGCGATTTGAAGAAAGTCCCGATTACATGTACTTGCGACAATTATTTAGAAATTAT
GCTCAGAACAAATTCATTGTTTATGATGAAATTTATGATTGGATGAAATGCCGTATATAA
ATTGCTTGAATTAGAGGAGCCTACGACAAACGGAGTTGTTTATAAATATTGTTCTCATAA
CTACATATTCAAGAAATGTTACTTTTCAATTTATTATATGATCACAAATGAATTTTGCCT
TCAAAGGAAATTTTCTCTTTCAAATTTATATTTCAATAAATTTTCTAAAATCATATCAAT
>g13984.t2 Gene=g13984 Length=299
MSLMSDTMIGNKYRVIRKIGSGSFGDIFLGINITNGEEVALKVESVMARHPQLLYEYKLY
KVLNGGVGIPHIRCFTQERSFNILVMDLLGPSLEDLFNFCSRHFTIKTVLMLVDQMIGRL
EYLHVKNFIHRDIKPDNFLMGIGRHCNKLFMIDFGLAKKYRDFRTRTHIVYREDKNLTGT
ARYASINAHLGIEQSRRDDMESLGYVMMYFNRGSLPWQGLKATNKKQKYEKISEKKMSTP
IEVLCKGFPAEFAMYLNYCRSLRFEESPDYMYLRQLFRNYAQNKFIVYDEIYDWMKCRI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13984.t2 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 2 | 298 | 1.2E-103 |
| 2 | g13984.t2 | PANTHER | PTHR11909 | CASEIN KINASE-RELATED | 6 | 296 | 4.3E-157 |
| 3 | g13984.t2 | PANTHER | PTHR11909:SF20 | CASEIN KINASE I ISOFORM ALPHA | 6 | 296 | 4.3E-157 |
| 1 | g13984.t2 | Pfam | PF00069 | Protein kinase domain | 13 | 231 | 6.2E-26 |
| 7 | g13984.t2 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 19 | 42 | - |
| 6 | g13984.t2 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 128 | 140 | - |
| 9 | g13984.t2 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 13 | 286 | 28.556 |
| 5 | g13984.t2 | SMART | SM00220 | serkin_6 | 13 | 286 | 2.9E-12 |
| 4 | g13984.t2 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 8 | 294 | 1.75E-80 |
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 K14758 (casein kinase I homolog HRR25)
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.
