Gene loci information

Transcript annotation

  • This transcript has been annotated as 3-phosphoinositide-dependent protein kinase 1.

Parent gene

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_2 g6496 g6496.t7 TSS g6496.t7 17283980 17283980
chr_2 g6496 g6496.t7 isoform g6496.t7 17284080 17285883
chr_2 g6496 g6496.t7 exon g6496.t7.exon1 17284080 17284142
chr_2 g6496 g6496.t7 cds g6496.t7.CDS1 17284080 17284142
chr_2 g6496 g6496.t7 exon g6496.t7.exon2 17284224 17284281
chr_2 g6496 g6496.t7 cds g6496.t7.CDS2 17284224 17284281
chr_2 g6496 g6496.t7 exon g6496.t7.exon3 17284353 17284855
chr_2 g6496 g6496.t7 cds g6496.t7.CDS3 17284353 17284855
chr_2 g6496 g6496.t7 exon g6496.t7.exon4 17284915 17284990
chr_2 g6496 g6496.t7 cds g6496.t7.CDS4 17284915 17284990
chr_2 g6496 g6496.t7 exon g6496.t7.exon5 17285053 17285735
chr_2 g6496 g6496.t7 cds g6496.t7.CDS5 17285053 17285735
chr_2 g6496 g6496.t7 exon g6496.t7.exon6 17285791 17285883
chr_2 g6496 g6496.t7 cds g6496.t7.CDS6 17285791 17285883
chr_2 g6496 g6496.t7 TTS g6496.t7 17285909 17285909

Sequences

>g6496.t7 Gene=g6496 Length=1476
ATGACTTCAAGGAGCACAAAAAAGAGCGATAACGATTTTATATTTTTAAAAATTATTGGG
GAGGGCTCATTTTCAACTGTTTATCTGTGTCGAGATGTAGAAACTGCAAAGGAATATGCA
ATAAAAGCTTGCGATAAAAAATTGATTCTTCGTGAGAAAAAACAAGAATATATCAAAAGA
GAAAAGGATGCCCTTCTGAAATTAAATAACACTATAGGCGTAATACAACTACTTTCAACT
TTTCAATCTGACAAGTATCTCTTTTTCGTTCTAACATATGCAAAAAATTCAGAACTACAT
CACTATTTGAAGCTAAAAATATTTAATTTAGAATGTGTAAAATACTATTCAGCTCAACTT
TTAATAGCAATTGAAGGCATACATAGAAAAAATATAATTCACAGGGACCTTAAGCCCCAA
AATTTGCTATTAGATTCATCTATGAAGTTAATAGTTGGAGATTTTGGTTCAAGTAAAATA
TTATCAGATCAAACTGACTCTAAAGAAGAACAGCTCAATATTAATAACAATAATAAAAAC
CAAGAAGAGAGAAACATTAGTGCTATAGGTGAAAGCAAAAGGCGTATAGATCGAAGAGCT
AGTTTTGTTGGAACAGCACTTTATGTAAGTCCAGAAGTTCTCAAAGGAAGCAAGTCTCAT
TTTTCAACTGACTTATTTGCATATGGTTGCATCGTTTATGAAATGTGTGCACATGGACGT
CCAGTGTTTGGAAGTTCTGGTGAAAATGAATATGTGGTTTTTCAAAAAATCCAAAATATG
GATTATAAATTTCCTGAAAATTTTGATTCAGAAGTAAAAGATTTAGTTCAAAAACTTTTA
AAAATTGATCCGGAAGAGAGATTAGGTGCAAAAGATCCAAAAGAATCAATTTATAAGTCA
ATTCGAGATCATGAGTTTTTTTCAACCATTAACTTTGATACTATTTATTCACAAACTTCA
CCTTTAATTTTTCTCAATAATTTTGCTGAAATGTTGCAGCAAAATAACGTAGTGCAACCT
AATGTCATTTTAGAACCGGGATTAGGAGAAAAACAATTAAAACGTATTTTACAATCAGAA
CTGAATTTGACTTCATCAAACTTAACTCCAGAAGCACTAGAAAAATTATTTAAAGAGCAA
ACTAAAATACAGTGGTCAGAGTTCTTAGATGAAAATGAATATTTAATTAAATACGGTTTT
ATATACAAAAGAAAAGGTTTGATACCGAGGAAAAGAATGTTACTTTTATCACTAGCGCTT
TCAACAAACACTCCTCGTTTGAGTTACATTGATGCTAATGCAAATATTAAGAAAGGAGAG
ATACCTTTAGACTCAACAACAGTATGTGAACCCAAAAATTTTAAAACTTTTTTCATTCAT
ACACCCAATCGCATATATTTTCTTGAAAGTCATGAAGGAGATGCACTTAAATGGTGTGAG
GCAATTGAGAAAATAAGAGATAAATATTGCAAATAA

>g6496.t7 Gene=g6496 Length=491
MTSRSTKKSDNDFIFLKIIGEGSFSTVYLCRDVETAKEYAIKACDKKLILREKKQEYIKR
EKDALLKLNNTIGVIQLLSTFQSDKYLFFVLTYAKNSELHHYLKLKIFNLECVKYYSAQL
LIAIEGIHRKNIIHRDLKPQNLLLDSSMKLIVGDFGSSKILSDQTDSKEEQLNINNNNKN
QEERNISAIGESKRRIDRRASFVGTALYVSPEVLKGSKSHFSTDLFAYGCIVYEMCAHGR
PVFGSSGENEYVVFQKIQNMDYKFPENFDSEVKDLVQKLLKIDPEERLGAKDPKESIYKS
IRDHEFFSTINFDTIYSQTSPLIFLNNFAEMLQQNNVVQPNVILEPGLGEKQLKRILQSE
LNLTSSNLTPEALEKLFKEQTKIQWSEFLDENEYLIKYGFIYKRKGLIPRKRMLLLSLAL
STNTPRLSYIDANANIKKGEIPLDSTTVCEPKNFKTFFIHTPNRIYFLESHEGDALKWCE
AIEKIRDKYCK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g6496.t7 CDD cd05581 STKc_PDK1 11 307 1.70517E-114
7 g6496.t7 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 11 97 1.0E-77
9 g6496.t7 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 98 319 1.0E-77
8 g6496.t7 Gene3D G3DSA:2.30.29.30 - 349 491 5.1E-35
3 g6496.t7 PANTHER PTHR24356 SERINE/THREONINE-PROTEIN KINASE 3 444 1.0E-92
4 g6496.t7 PANTHER PTHR24356:SF163 3-PHOSPHOINOSITIDE-DEPENDENT PROTEIN KINASE 1-RELATED 3 444 1.0E-92
2 g6496.t7 Pfam PF00069 Protein kinase domain 15 295 1.2E-53
1 g6496.t7 Pfam PF14593 PH domain 384 490 2.8E-32
12 g6496.t7 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 19 42 -
11 g6496.t7 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 132 144 -
15 g6496.t7 ProSiteProfiles PS50011 Protein kinase domain profile. 13 307 41.757
14 g6496.t7 SMART SM00220 serkin_6 13 307 6.7E-72
13 g6496.t7 SMART SM00233 PH_update 395 489 9.4E-6
6 g6496.t7 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 11 343 1.64E-70
5 g6496.t7 SUPERFAMILY SSF50729 PH domain-like 301 489 5.66E-29

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

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.

Raw TPM values