General information for g12215.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine/threonine-protein kinase RIO2.
Parent gene
- The parent gene g12215 is located on chr_1: 21783767..21785309 (+ 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 | g12215 | g12215.t2 | TSS | g12215.t2 | 21781945 | 21781945 |
| chr_1 | g12215 | g12215.t2 | isoform | g12215.t2 | 21782025 | 21782961 |
| chr_1 | g12215 | g12215.t2 | exon | g12215.t2.exon1 | 21782025 | 21782090 |
| chr_1 | g12215 | g12215.t2 | exon | g12215.t2.exon2 | 21782150 | 21782961 |
| chr_1 | g12215 | g12215.t2 | cds | g12215.t2.CDS1 | 21782631 | 21782960 |
| chr_1 | g12215 | g12215.t2 | TTS | g12215.t2 | 21783819 | 21783819 |
Sequences
>g12215.t2 Gene=g12215 Length=878
ATGGGTAAATTAAATGTGACAGTTCTTCGTTATCTCTCAAAAGAGGATTTTAGAGTATTG
ACAGCGATTGAGATGCTTTCTAAAAATCATGAATTATGTCCTGGATCAATGGTAGCAGTA
GTCGCAAACCTCAAATCAGGTGGTGTACATAAATTACTAAAAGAATTATGCAAACATAAG
CTTGTTTCATATGAAAGAGGAGCAAAATGTAAGTTTGTTTAAATAAAATTTCATTATTGA
ATTTAATTTGAAACTTCTTGTAGATGACGGTTTTCGTTTGACAAACACGGGATACGATTA
TTTAGCATTAAAAGCACTCACATTACGAGGATCAATCTATTCTTTTGGTACTCAAATTGG
CGTTGGTAAAGAATCAAATATTTACACAGTTTCAGATGAAGAAGGCAAACAACTTTGTCT
AAAACTCCATCGTCTTGGTCGTACATGCTTCAGAAACGTTAGAAATAAGAGAGATTATCA
TGGTAAAAGAAAGAAGACATCATGGCTTTATTTATCAAGAATATCAGCCACAAGAGAATT
TGCTTATATGAAAGCACTTTATGATCGCGGCTTTCCAGTACCAAAACCAATTGATTTCAA
TCGTCATTGTGTCATTATGGAGCTCATTAATGGTTATCCTATGACTCAAATCAATGAAGT
TATTGATATTGATCAACTCTACGATGATTTAATGAATTTAATTGTACGCTTGGGAAATTG
TGGAGTTATTCATGGCGATTTCAATGAATTTAACATTCTCGTAACTGATGAAGCTAAACC
AATTCTAATTGATTTTCCTCAAATGGTATCTACGTCACATGAAAATGCAAAAATGTTCTT
CGAGCGTGATGTCAATGGTGTTAGAGATCTATTTAAAA
>g12215.t2 Gene=g12215 Length=110
MKALYDRGFPVPKPIDFNRHCVIMELINGYPMTQINEVIDIDQLYDDLMNLIVRLGNCGV
IHGDFNEFNILVTDEAKPILIDFPQMVSTSHENAKMFFERDVNGVRDLFK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g12215.t2 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 1 | 29 | 1.7E-9 |
| 8 | g12215.t2 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 30 | 110 | 3.2E-35 |
| 2 | g12215.t2 | PANTHER | PTHR45852:SF1 | SERINE/THREONINE-PROTEIN KINASE RIO2 | 1 | 110 | 2.4E-51 |
| 3 | g12215.t2 | PANTHER | PTHR45852 | SER/THR-PROTEIN KINASE RIO2 | 1 | 110 | 2.4E-51 |
| 1 | g12215.t2 | Pfam | PF01163 | RIO1 family | 1 | 110 | 1.6E-35 |
| 6 | g12215.t2 | ProSitePatterns | PS01245 | RIO1/ZK632.3/MJ0444 family signature. | 60 | 71 | - |
| 5 | g12215.t2 | SMART | SM00090 | rio_2 | 1 | 110 | 0.0024 |
| 4 | g12215.t2 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 4 | 106 | 1.64E-19 |
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:0004674 | protein serine/threonine kinase activity | MF |
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.
