Gene loci information

Transcript annotation

  • This transcript has been annotated as Ribosomal protein S6 kinase beta.

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_1 g11364 g11364.t7 isoform g11364.t7 15812362 15813654
chr_1 g11364 g11364.t7 exon g11364.t7.exon1 15812362 15812422
chr_1 g11364 g11364.t7 cds g11364.t7.CDS1 15812362 15812422
chr_1 g11364 g11364.t7 exon g11364.t7.exon2 15812488 15812542
chr_1 g11364 g11364.t7 cds g11364.t7.CDS2 15812488 15812542
chr_1 g11364 g11364.t7 exon g11364.t7.exon3 15812600 15812678
chr_1 g11364 g11364.t7 cds g11364.t7.CDS3 15812600 15812678
chr_1 g11364 g11364.t7 exon g11364.t7.exon4 15812744 15812999
chr_1 g11364 g11364.t7 cds g11364.t7.CDS4 15812744 15812999
chr_1 g11364 g11364.t7 exon g11364.t7.exon5 15813065 15813105
chr_1 g11364 g11364.t7 cds g11364.t7.CDS5 15813065 15813105
chr_1 g11364 g11364.t7 exon g11364.t7.exon6 15813565 15813654
chr_1 g11364 g11364.t7 cds g11364.t7.CDS6 15813565 15813654
chr_1 g11364 g11364.t7 TSS g11364.t7 15813931 15813931
chr_1 g11364 g11364.t7 TTS g11364.t7 NA NA

Sequences

>g11364.t7 Gene=g11364 Length=582
ATGGCCGATGTATTTCAATTTGAGATCGATGAAACGCATCAGGAGGCGAATATTGATGCA
GACGATAATGATGAAGTTATTATAGATGATATGGATCTGGAAACGGAATTAAATATGAAT
AAAAATATGGACCTTGAAACTGAAACGATACAATTAAGCGAAGAAATCGTAAACCCGCCA
GGAAGAAAATTGGGACCGCAAGATTTTGAACTCAAAAAAGTGCTAGGAAAGGGAGGGTAC
GGAAAGGTATTTCAAGTGAAAAAAGTTACAGGTAAAGACGCAGGTAACTTTTTTGCAATG
AAGGTACTCAAAAAAGCATCTATTGTTCGAAATCAAAAAGACACAGCTCATACAAGAGCC
GAAAGAAATATATTGGAAGCTGTAAAACATCCATTTATTGTAGAATTAGTTTATGCATTT
CAAACTGGTGGAAAGTTATATTTGATTTTAGAATATCTCAGTGGAGGTGAACTTTTTATG
CATTTAGAACGTGAAGGAATATTTTTAGAGGACACTACATGCTTTTATTTGAATGAGATA
GTACTAGCATTAGAACATCTTCATTCGCTAGGAATCATTTAT

>g11364.t7 Gene=g11364 Length=194
MADVFQFEIDETHQEANIDADDNDEVIIDDMDLETELNMNKNMDLETETIQLSEEIVNPP
GRKLGPQDFELKKVLGKGGYGKVFQVKKVTGKDAGNFFAMKVLKKASIVRNQKDTAHTRA
ERNILEAVKHPFIVELVYAFQTGGKLYLILEYLSGGELFMHLEREGIFLEDTTCFYLNEI
VLALEHLHSLGIIY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g11364.t7 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 69 156 5.5E-51
8 g11364.t7 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 157 194 5.5E-51
2 g11364.t7 PANTHER PTHR24351:SF171 RIBOSOMAL PROTEIN S6 KINASE BETA-2 8 194 6.3E-76
3 g11364.t7 PANTHER PTHR24351 RIBOSOMAL PROTEIN S6 KINASE 8 194 6.3E-76
1 g11364.t7 Pfam PF00069 Protein kinase domain 69 194 9.8E-27
6 g11364.t7 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 75 101 -
9 g11364.t7 ProSiteProfiles PS50011 Protein kinase domain profile. 69 194 23.835
5 g11364.t7 SMART SM00220 serkin_6 69 194 2.9E-7
4 g11364.t7 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 62 194 6.34E-34

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. There were no conditions that were differentially expressed