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.t5 isoform g11364.t5 15811954 15813654
chr_1 g11364 g11364.t5 exon g11364.t5.exon1 15811954 15812114
chr_1 g11364 g11364.t5 cds g11364.t5.CDS1 15811955 15812114
chr_1 g11364 g11364.t5 exon g11364.t5.exon2 15812179 15812305
chr_1 g11364 g11364.t5 cds g11364.t5.CDS2 15812179 15812305
chr_1 g11364 g11364.t5 exon g11364.t5.exon3 15812358 15812422
chr_1 g11364 g11364.t5 cds g11364.t5.CDS3 15812358 15812422
chr_1 g11364 g11364.t5 exon g11364.t5.exon4 15812488 15812542
chr_1 g11364 g11364.t5 cds g11364.t5.CDS4 15812488 15812542
chr_1 g11364 g11364.t5 exon g11364.t5.exon5 15812600 15812678
chr_1 g11364 g11364.t5 cds g11364.t5.CDS5 15812600 15812678
chr_1 g11364 g11364.t5 exon g11364.t5.exon6 15812744 15812999
chr_1 g11364 g11364.t5 cds g11364.t5.CDS6 15812744 15812999
chr_1 g11364 g11364.t5 exon g11364.t5.exon7 15813065 15813105
chr_1 g11364 g11364.t5 cds g11364.t5.CDS7 15813065 15813105
chr_1 g11364 g11364.t5 exon g11364.t5.exon8 15813565 15813654
chr_1 g11364 g11364.t5 cds g11364.t5.CDS8 15813565 15813654
chr_1 g11364 g11364.t5 TSS g11364.t5 15813931 15813931
chr_1 g11364 g11364.t5 TTS g11364.t5 NA NA

Sequences

>g11364.t5 Gene=g11364 Length=874
ATGGCCGATGTATTTCAATTTGAGATCGATGAAACGCATCAGGAGGCGAATATTGATGCA
GACGATAATGATGAAGTTATTATAGATGATATGGATCTGGAAACGGAATTAAATATGAAT
AAAAATATGGACCTTGAAACTGAAACGATACAATTAAGCGAAGAAATCGTAAACCCGCCA
GGAAGAAAATTGGGACCGCAAGATTTTGAACTCAAAAAAGTGCTAGGAAAGGGAGGGTAC
GGAAAGGTATTTCAAGTGAAAAAAGTTACAGGTAAAGACGCAGGTAACTTTTTTGCAATG
AAGGTACTCAAAAAAGCATCTATTGTTCGAAATCAAAAAGACACAGCTCATACAAGAGCC
GAAAGAAATATATTGGAAGCTGTAAAACATCCATTTATTGTAGAATTAGTTTATGCATTT
CAAACTGGTGGAAAGTTATATTTGATTTTAGAATATCTCAGTGGAGGTGAACTTTTTATG
CATTTAGAACGTGAAGGAATATTTTTAGAGGACACTACATGCTTTTATTTGAATGAGATA
GTACTAGCATTAGAACATCTTCATTCGCTAGGAATCATTTATAGAGACCTTAAACCAGAA
AATGTCTTACTTGATGCACAAGGACATGTAAAATTAACGGATTTTGGACTTTGCAAAGAA
CATATTCATGAGGGCATAACTGCTTGGACGTTTTGTGGAACAATTGAATATATGGCACCT
GAAATATTAACGAGGGCGGGTCATGGAAAAGCAGTAGATTGGTGGAGTCTTGGTGCTCTC
ATGTATGACATGCTTACTGGTAATCCTCCCTTTAGTGCTGAAAATAGAAAGAAAACTATT
GAAACAATTCTCAAAGGAAAACTCAATCTTCCAG

>g11364.t5 Gene=g11364 Length=291
MADVFQFEIDETHQEANIDADDNDEVIIDDMDLETELNMNKNMDLETETIQLSEEIVNPP
GRKLGPQDFELKKVLGKGGYGKVFQVKKVTGKDAGNFFAMKVLKKASIVRNQKDTAHTRA
ERNILEAVKHPFIVELVYAFQTGGKLYLILEYLSGGELFMHLEREGIFLEDTTCFYLNEI
VLALEHLHSLGIIYRDLKPENVLLDAQGHVKLTDFGLCKEHIHEGITAWTFCGTIEYMAP
EILTRAGHGKAVDWWSLGALMYDMLTGNPPFSAENRKKTIETILKGKLNLP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g11364.t5 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 51 155 1.2E-38
9 g11364.t5 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 156 291 6.7E-51
2 g11364.t5 PANTHER PTHR24351:SF171 RIBOSOMAL PROTEIN S6 KINASE BETA-2 8 291 6.1E-144
3 g11364.t5 PANTHER PTHR24351 RIBOSOMAL PROTEIN S6 KINASE 8 291 6.1E-144
1 g11364.t5 Pfam PF00069 Protein kinase domain 69 285 7.6E-66
7 g11364.t5 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 75 101 -
6 g11364.t5 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 192 204 -
10 g11364.t5 ProSiteProfiles PS50011 Protein kinase domain profile. 69 291 47.467
5 g11364.t5 SMART SM00220 serkin_6 69 285 2.7E-72
4 g11364.t5 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 62 288 1.01E-75

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