General information for g15989.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 3-phosphoinositide-dependent protein kinase 1.
Parent gene
- The parent gene g15989 is located on chr_4: 7725019..7726584 (+ 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_4 | g15989 | g15989.t3 | TSS | g15989.t3 | 7724805 | 7724805 |
| chr_4 | g15989 | g15989.t3 | isoform | g15989.t3 | 7724822 | 7726584 |
| chr_4 | g15989 | g15989.t3 | exon | g15989.t3.exon1 | 7724822 | 7724874 |
| chr_4 | g15989 | g15989.t3 | exon | g15989.t3.exon2 | 7724937 | 7725136 |
| chr_4 | g15989 | g15989.t3 | cds | g15989.t3.CDS1 | 7725019 | 7725136 |
| chr_4 | g15989 | g15989.t3 | exon | g15989.t3.exon3 | 7725693 | 7726584 |
| chr_4 | g15989 | g15989.t3 | cds | g15989.t3.CDS2 | 7725693 | 7726360 |
| chr_4 | g15989 | g15989.t3 | TTS | g15989.t3 | 7726909 | 7726909 |
Sequences
>g15989.t3 Gene=g15989 Length=1145
AGTTTGTTTACAAATTTCTTTTATAATTTTTATTTAAGTATTTTATTTTTACGTGAAAAT
GAAAACAAATTAGAAAAAAAATCATCAAAACAGTCCTTGAAAAAAAAAAGTTTTATTAAA
TTTGTGCTAATTAAAATGGATTCATCAAAAAGAAAGACGGAAGCAGATTTTCAATTTGGA
AGAGTATTAGGAGAAGGAAGTTTTTCAACTGTTTATGTAGCCAGAGATATTTCATCAAGA
AAGGAATTTGCAATAAAAGTCTGCGATAAAGCTCACATAATCAGAGAACGCAAGCAAGAA
TACGTTGCTCGTGAAAAACACGCTCTGCAAAAGCTCAAAACAGTCAAAGGTGTTATTGAG
CTTTTTTGCACTTTTCAATCTCCAACAAAGCTCTTTTTTGTTGTGACACTCGCTCGAAAT
GGTGATCTTCTTAAATATATTCAACAAACTGGCTGTCTTAGACTCGAATGTGCAAAATTT
TATGCTGCTGAGCTATTAGTAGCTATTGAGGGTATGCATCGAAATAATGTCATTCATAGA
GATATAAAACCAGAAAATATTTTACTCGATGAAAATATGCACTTGCTCATTGCCGATTTT
GGTTCAGCAAAAATTCTTTCTGATAATTATGATTATCATGCTGAACAAGAAGAAATTGAA
AGAAATCGAAGAAATGAAGAAAATGGCCATGATGAACCAGTGAGGCCAATGAGACGATCA
AGTTTTGTTGGAACTGCTCAGTATGTTTCACCTGAGGTACTTAATGGTGATGCTGCACAT
CCTGCTATGGATTTATTTTCTTATGGCTGCATTCTTTATCAAATGCTTTGTGGGAAATTT
GCTTTTAATGCGCCAAATGAGTATTTAACTTTTCAAAAGATTTTGAAGCTTAATTATAAA
TTTAATGATGGTAAGAAATGAAGCACAATTCAAATATTTTCAAAAAATTTAATTTTTTTT
TTTTAGATTTCAATACAGAAGGAAAAGATTTGATTGAAAAACTTTTACTGCTTAAACCAG
AACAGCGACTTGGCGCCAAAGATCCCAAAGATTTACTTTATGTTTCCATTAGAACTCATC
CATTTTTTATTGGTATCGAATTTGAAAATTTATTTAATTCAACACCGCCGCCATTTGTTG
AATAG
>g15989.t3 Gene=g15989 Length=261
MDSSKRKTEADFQFGRVLGEGSFSTVYVARDISSRKEFAIKVCDKAHIIRERKQEYVARE
KHALQKLKTVKGVIELFCTFQSPTKLFFVVTLARNGDLLKYIQQTGCLRLECAKFYAAEL
LVAIEGMHRNNVIHRDIKPENILLDENMHLLIADFGSAKILSDNYDYHAEQEEIERNRRN
EENGHDEPVRPMRRSSFVGTAQYVSPEVLNGDAAHPAMDLFSYGCILYQMLCGKFAFNAP
NEYLTFQKILKLNYKFNDGKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g15989.t3 | CDD | cd05581 | STKc_PDK1 | 11 | 259 | 4.07138E-120 |
| 5 | g15989.t3 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 5 | 96 | 2.8E-27 |
| 6 | g15989.t3 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 97 | 260 | 1.0E-42 |
| 2 | g15989.t3 | PANTHER | PTHR24356 | SERINE/THREONINE-PROTEIN KINASE | 3 | 257 | 1.9E-87 |
| 3 | g15989.t3 | PANTHER | PTHR24356:SF163 | 3-PHOSPHOINOSITIDE-DEPENDENT PROTEIN KINASE 1-RELATED | 3 | 257 | 1.9E-87 |
| 7 | g15989.t3 | PIRSF | PIRSF000654 | ILK | 1 | 252 | 4.7E-22 |
| 1 | g15989.t3 | Pfam | PF00069 | Protein kinase domain | 13 | 250 | 6.8E-52 |
| 10 | g15989.t3 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 18 | 41 | - |
| 9 | g15989.t3 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 132 | 144 | - |
| 12 | g15989.t3 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 12 | 261 | 37.361 |
| 11 | g15989.t3 | SMART | SM00220 | serkin_6 | 12 | 261 | 8.5E-54 |
| 4 | g15989.t3 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 11 | 252 | 2.43E-65 |
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 |
| GO:0004672 | protein kinase activity | MF |
| GO:0006468 | protein phosphorylation | BP |
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.
