General information for g1705.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t1 | TTS | g1705.t1 | 12610127 | 12610127 |
| chr_3 | g1705 | g1705.t1 | isoform | g1705.t1 | 12610167 | 12611768 |
| chr_3 | g1705 | g1705.t1 | exon | g1705.t1.exon1 | 12610167 | 12611624 |
| chr_3 | g1705 | g1705.t1 | cds | g1705.t1.CDS1 | 12610167 | 12611624 |
| chr_3 | g1705 | g1705.t1 | exon | g1705.t1.exon2 | 12611679 | 12611768 |
| chr_3 | g1705 | g1705.t1 | cds | g1705.t1.CDS2 | 12611679 | 12611768 |
| chr_3 | g1705 | g1705.t1 | TSS | g1705.t1 | 12612637 | 12612637 |
Sequences
>g1705.t1 Gene=g1705 Length=1548
ATGGAAGTAGAAAAAAAGGTTTATCACCCAAATCAGTTTGATGATGATGAAGTTGAAGGA
ACATTGAATGTGGAAAACGAAATAATTGAGGATTTAGAAAATGTTGAATTTAATGAATAT
TCGAGTGATGAAGACGATTATGATTATTGTAAATTTGATTACGATGAAGCAAGAAATAAA
ATTAATTCAATTGGAAATCATTCAAATACACAAAATGGAAATTCAGCAAATTCAAACACT
TTAAAATTTCAATCGTCAACAAATCTCTTTCGAAAATATGCAAATAAAATCAATGTAGAT
AAGTATGAAGGTAAAGATAAAACTAGAATTAAAGACAAACAGGATCGTGCAACTGCTGAG
CAAGTCATGGATCCAAGAACTAGAATGATTCTTTTTAAACTTCTTAATCGCGGCTTCATA
ACTGAAATAAATGGCTGTATATCAACTGGAAAAGAAGCTAATGTTTATCACTGTACAAAC
AAATTTGGTGATGAATATGCTATAAAAATTTATAAAACTTCAATTTTGGTATTTAAAGAT
CGCGACAAGTATGTGACAGGTGAATTTAGATTTCGTCATGGTTATTGTAAAAGTAATCCA
AGAAAAATGGTTCGAACATGGGCTGAAAAAGAGATGAGAAACTTGTGTCGCATGCACAAA
AATAATTTACCCGTTCCAGAACCGATTTTATTAAAATCTCATGTACTCATCATGACTTTC
ATGGGAACTGATGGTTATCCTGCGCCAAAATTAAAAGACGTTGAATTGTCAACTTCAAAA
GCTCGCGAATTATATAGAGAGTGTGTGGTTCTTGTATGGCGATTATACAATATTGTCAAA
TTGGTTCATGCAGATTTATCAGAATTTAATATGCTTTATCATAATGATTCAGTCGTTATA
ATCGATGTCTCACAATCAGTAGAACAAGAGCATCCACAAGCATTCGAGTTTCTTAGAAAA
GATTGTACAAACATCTCAGATTTTTTTAGACGAAAAGGTGTTTCAACAATGACTGTAAAA
GAATTATTTGATTTTATAACAGATCCAACAATAACTGAAGAAAATATGGAACAGTGTTTA
GAAGCAATTTCTGAAAAAATTGCTAATAGAAATATTGATGAATTAACAGAGCAAGAGAAA
ATTGATGAAGAAGTTTTTAAAAAGGCTTTTATTCCAAAAACACTCAGTGATGTCTATAAT
GTTGAACGTGATGTTTTTGATAAGAAGAAAAATTCAAATGATAAATATCAGCTAATTTAT
TCAACAGTTGCTGGTCTTGATTCAAATTTAAAAGTTGCCGAAAAACCTAAAGTGCTTGAA
CAGGAAGAAGAACATAATGAAAGTCAATCAGAAAATGAAGAAGGTGACGATTCTGATGAG
GATACAGAAGAGTCAAAAGCAAAATCACAAGGAAGGAATAAAAATGAGACAACTGAAGAA
AAGAAAGCTCGCAAAAAGGCACTTCGTGAGGAAAAGGCTACTAAAAGGGAGAATAAAATC
CCAAAGCATGTAAAAAAGAGGAAAGAGAAACTTGGTAGAAAAAAGTAA
>g1705.t1 Gene=g1705 Length=515
MEVEKKVYHPNQFDDDEVEGTLNVENEIIEDLENVEFNEYSSDEDDYDYCKFDYDEARNK
INSIGNHSNTQNGNSANSNTLKFQSSTNLFRKYANKINVDKYEGKDKTRIKDKQDRATAE
QVMDPRTRMILFKLLNRGFITEINGCISTGKEANVYHCTNKFGDEYAIKIYKTSILVFKD
RDKYVTGEFRFRHGYCKSNPRKMVRTWAEKEMRNLCRMHKNNLPVPEPILLKSHVLIMTF
MGTDGYPAPKLKDVELSTSKARELYRECVVLVWRLYNIVKLVHADLSEFNMLYHNDSVVI
IDVSQSVEQEHPQAFEFLRKDCTNISDFFRRKGVSTMTVKELFDFITDPTITEENMEQCL
EAISEKIANRNIDELTEQEKIDEEVFKKAFIPKTLSDVYNVERDVFDKKKNSNDKYQLIY
STVAGLDSNLKVAEKPKVLEQEEEHNESQSENEEGDDSDEDTEESKAKSQGRNKNETTEE
KKARKKALREEKATKRENKIPKHVKKRKEKLGRKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g1705.t1 | CDD | cd05147 | RIO1_euk | 143 | 332 | 4.70166E-134 |
| 7 | g1705.t1 | Coils | Coil | Coil | 478 | 498 | - |
| 5 | g1705.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 140 | 242 | 1.1E-17 |
| 6 | g1705.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 248 | 391 | 6.9E-55 |
| 15 | g1705.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 438 | 515 | - |
| 14 | g1705.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 446 | 461 | - |
| 12 | g1705.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 462 | 498 | - |
| 13 | g1705.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 499 | 515 | - |
| 2 | g1705.t1 | PANTHER | PTHR45723:SF2 | SERINE/THREONINE-PROTEIN KINASE RIO1 | 26 | 514 | 1.0E-175 |
| 3 | g1705.t1 | PANTHER | PTHR45723 | SERINE/THREONINE-PROTEIN KINASE RIO1 | 26 | 514 | 1.0E-175 |
| 8 | g1705.t1 | PIRSF | PIRSF038147 | STPK_RIO1 | 1 | 515 | 1.5E-195 |
| 1 | g1705.t1 | Pfam | PF01163 | RIO1 family | 154 | 341 | 7.1E-75 |
| 11 | g1705.t1 | ProSitePatterns | PS01245 | RIO1/ZK632.3/MJ0444 family signature. | 281 | 292 | - |
| 10 | g1705.t1 | SMART | SM00090 | rio_2 | 112 | 348 | 4.0E-128 |
| 4 | g1705.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 142 | 329 | 5.27E-25 |
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 transcript has been annotated with K07178 (RIO kinase 1)
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.
