General information for g1705.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine/threonine-protein kinase RIO1.
Parent gene
- The parent gene g1705 is located on chr_3: 12610167..12611768 (- 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_3 | g1705 | g1705.t3 | TTS | g1705.t3 | 12610127 | 12610127 |
| chr_3 | g1705 | g1705.t3 | isoform | g1705.t3 | 12610167 | 12610914 |
| chr_3 | g1705 | g1705.t3 | exon | g1705.t3.exon1 | 12610167 | 12610914 |
| chr_3 | g1705 | g1705.t3 | cds | g1705.t3.CDS1 | 12610167 | 12610844 |
| chr_3 | g1705 | g1705.t3 | TSS | g1705.t3 | 12611830 | 12611830 |
Sequences
>g1705.t3 Gene=g1705 Length=748
GTGTGTGGTTCTTGTATGGCGATTATACAATATTGTCAAATTGGTTCATGCAGATTTATC
AGAATTTAATATGCTTTATCATAATGATTCAGTCGTTATAATCGATGTCTCACAATCAGT
AGAACAAGAGCATCCACAAGCATTCGAGTTTCTTAGAAAAGATTGTACAAACATCTCAGA
TTTTTTTAGACGAAAAGGTGTTTCAACAATGACTGTAAAAGAATTATTTGATTTTATAAC
AGATCCAACAATAACTGAAGAAAATATGGAACAGTGTTTAGAAGCAATTTCTGAAAAAAT
TGCTAATAGAAATATTGATGAATTAACAGAGCAAGAGAAAATTGATGAAGAAGTTTTTAA
AAAGGCTTTTATTCCAAAAACACTCAGTGATGTCTATAATGTTGAACGTGATGTTTTTGA
TAAGAAGAAAAATTCAAATGATAAATATCAGCTAATTTATTCAACAGTTGCTGGTCTTGA
TTCAAATTTAAAAGTTGCCGAAAAACCTAAAGTGCTTGAACAGGAAGAAGAACATAATGA
AAGTCAATCAGAAAATGAAGAAGGTGACGATTCTGATGAGGATACAGAAGAGTCAAAAGC
AAAATCACAAGGAAGGAATAAAAATGAGACAACTGAAGAAAAGAAAGCTCGCAAAAAGGC
ACTTCGTGAGGAAAAGGCTACTAAAAGGGAGAATAAAATCCCAAAGCATGTAAAAAAGAG
GAAAGAGAAACTTGGTAGAAAAAAGTAA
>g1705.t3 Gene=g1705 Length=225
MLYHNDSVVIIDVSQSVEQEHPQAFEFLRKDCTNISDFFRRKGVSTMTVKELFDFITDPT
ITEENMEQCLEAISEKIANRNIDELTEQEKIDEEVFKKAFIPKTLSDVYNVERDVFDKKK
NSNDKYQLIYSTVAGLDSNLKVAEKPKVLEQEEEHNESQSENEEGDDSDEDTEESKAKSQ
GRNKNETTEEKKARKKALREEKATKRENKIPKHVKKRKEKLGRKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g1705.t3 | Coils | Coil | Coil | 188 | 208 | - |
| 8 | g1705.t3 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 1 | 101 | 8.4E-34 |
| 7 | g1705.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 148 | 225 | - |
| 4 | g1705.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 156 | 171 | - |
| 6 | g1705.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 172 | 208 | - |
| 5 | g1705.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 209 | 225 | - |
| 2 | g1705.t3 | PANTHER | PTHR45723:SF2 | SERINE/THREONINE-PROTEIN KINASE RIO1 | 1 | 224 | 5.7E-58 |
| 3 | g1705.t3 | PANTHER | PTHR45723 | SERINE/THREONINE-PROTEIN KINASE RIO1 | 1 | 224 | 5.7E-58 |
| 1 | g1705.t3 | Pfam | PF01163 | RIO1 family | 1 | 51 | 7.3E-17 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
