Gene loci information

Transcript annotation

  • This transcript has been annotated as STE20-like serine/threonine-protein kinase.

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 g6582 g6582.t4 isoform g6582.t4 17705580 17707251
chr_2 g6582 g6582.t4 exon g6582.t4.exon1 17705580 17705590
chr_2 g6582 g6582.t4 exon g6582.t4.exon2 17706358 17706936
chr_2 g6582 g6582.t4 cds g6582.t4.CDS1 17706613 17706936
chr_2 g6582 g6582.t4 exon g6582.t4.exon3 17707001 17707251
chr_2 g6582 g6582.t4 cds g6582.t4.CDS2 17707001 17707249
chr_2 g6582 g6582.t4 TSS g6582.t4 NA NA
chr_2 g6582 g6582.t4 TTS g6582.t4 NA NA

Sequences

>g6582.t4 Gene=g6582 Length=841
ACTAGAAAAAGGCTGTCTGCTTAAAATATATCCTTTTCTGATTCCATTGTACAACGAATT
AAGTGTCATTAAGAATGTATAATGAAAATAATAAGTAAGAAAATGCAGCTACAAAGATTT
TAATGTTATTAAAATATATCAACAAAAATCATTGTAAAGGGAGAGTGAGAGAGCTAAAAT
ATATTGCAGAACTATTTTTTCACAGTGAAAGATTTTTTATTAGTATTTGTATTGTCAAAA
TAAGTGAATAAGTGTATTGTGCAAAAATGTCATTTTTAAATAATTTGAAAAAAGTTTTCC
ACTTGGGAAGTGGAGAAACAAAAAAGAAACGCCTTTATAATAATATTCGAATGGACACAA
GTCCCAATGATTTTTGGGACATGATTGGAGAGCTTGGCGATGGCGCATTTGGTAAAGTTT
ATAAAGCTCAAAATAAAGAAACAGGACAGTATGCTGCTGCAAAAATGTGTACACTTGAGG
ATGAAGAAAATTTAAGTGATCACATGGTAGAAATAGACATTTTATCAGAAATAAGACATT
CGAATATTGTAGAGCTCTATGAAGCTTTTTTTATTGATGATAAATTATGGATGTTGATTG
AATATTGTGACGGCGGTGCCTTAGATAGCATAATGGTAGAATTGGAAAAGCCTTTAACTG
AGCCACAAATTGCATATGTAACAAAGCATATGATAGCTGGACTTAATCATTTGCATAAGA
ATAAAGTGATCCATAGAGATCTTAAAGCTGGAAATGTCCTTCTTACAATGGATGGAGGTG
TAAAATTAGCGGATTTTGGAGTGTCTGCGAAAAATAAGCATACAATGCAAAAACATGATA
C

>g6582.t4 Gene=g6582 Length=191
MSFLNNLKKVFHLGSGETKKKRLYNNIRMDTSPNDFWDMIGELGDGAFGKVYKAQNKETG
QYAAAKMCTLEDEENLSDHMVEIDILSEIRHSNIVELYEAFFIDDKLWMLIEYCDGGALD
SIMVELEKPLTEPQIAYVTKHMIAGLNHLHKNKVIHRDLKAGNVLLTMDGGVKLADFGVS
AKNKHTMQKHD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g6582.t4 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 17 113 2.9E-30
9 g6582.t4 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 114 191 5.5E-26
2 g6582.t4 PANTHER PTHR46538 - 5 190 4.1E-86
3 g6582.t4 PANTHER PTHR46538:SF1 STE20 LIKE KINASE 5 190 4.1E-86
1 g6582.t4 Pfam PF00069 Protein kinase domain 40 186 2.1E-39
7 g6582.t4 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 43 66 -
6 g6582.t4 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 154 166 -
10 g6582.t4 ProSiteProfiles PS50011 Protein kinase domain profile. 37 191 32.089
5 g6582.t4 SMART SM00220 serkin_6 37 188 2.2E-12
4 g6582.t4 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 32 188 1.62E-50

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: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.

Raw TPM values