Gene loci information

Transcript annotation

  • This transcript has been annotated as Ribosomal protein S6 kinase beta-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_1 g11364 g11364.t1 TTS g11364.t1 15810593 15810593
chr_1 g11364 g11364.t1 isoform g11364.t1 15811160 15813654
chr_1 g11364 g11364.t1 exon g11364.t1.exon1 15811160 15811573
chr_1 g11364 g11364.t1 cds g11364.t1.CDS1 15811160 15811573
chr_1 g11364 g11364.t1 exon g11364.t1.exon2 15811646 15811755
chr_1 g11364 g11364.t1 cds g11364.t1.CDS2 15811646 15811755
chr_1 g11364 g11364.t1 exon g11364.t1.exon3 15811820 15811888
chr_1 g11364 g11364.t1 cds g11364.t1.CDS3 15811820 15811888
chr_1 g11364 g11364.t1 exon g11364.t1.exon4 15811954 15812114
chr_1 g11364 g11364.t1 cds g11364.t1.CDS4 15811954 15812114
chr_1 g11364 g11364.t1 exon g11364.t1.exon5 15812179 15812305
chr_1 g11364 g11364.t1 cds g11364.t1.CDS5 15812179 15812305
chr_1 g11364 g11364.t1 exon g11364.t1.exon6 15812358 15812422
chr_1 g11364 g11364.t1 cds g11364.t1.CDS6 15812358 15812422
chr_1 g11364 g11364.t1 exon g11364.t1.exon7 15812488 15812542
chr_1 g11364 g11364.t1 cds g11364.t1.CDS7 15812488 15812542
chr_1 g11364 g11364.t1 exon g11364.t1.exon8 15812600 15812678
chr_1 g11364 g11364.t1 cds g11364.t1.CDS8 15812600 15812678
chr_1 g11364 g11364.t1 exon g11364.t1.exon9 15812744 15812999
chr_1 g11364 g11364.t1 cds g11364.t1.CDS9 15812744 15812999
chr_1 g11364 g11364.t1 exon g11364.t1.exon10 15813065 15813105
chr_1 g11364 g11364.t1 cds g11364.t1.CDS10 15813065 15813105
chr_1 g11364 g11364.t1 exon g11364.t1.exon11 15813565 15813654
chr_1 g11364 g11364.t1 cds g11364.t1.CDS11 15813565 15813654
chr_1 g11364 g11364.t1 TSS g11364.t1 15813931 15813931

Sequences

>g11364.t1 Gene=g11364 Length=1467
ATGGCCGATGTATTTCAATTTGAGATCGATGAAACGCATCAGGAGGCGAATATTGATGCA
GACGATAATGATGAAGTTATTATAGATGATATGGATCTGGAAACGGAATTAAATATGAAT
AAAAATATGGACCTTGAAACTGAAACGATACAATTAAGCGAAGAAATCGTAAACCCGCCA
GGAAGAAAATTGGGACCGCAAGATTTTGAACTCAAAAAAGTGCTAGGAAAGGGAGGGTAC
GGAAAGGTATTTCAAGTGAAAAAAGTTACAGGTAAAGACGCAGGTAACTTTTTTGCAATG
AAGGTACTCAAAAAAGCATCTATTGTTCGAAATCAAAAAGACACAGCTCATACAAGAGCC
GAAAGAAATATATTGGAAGCTGTAAAACATCCATTTATTGTAGAATTAGTTTATGCATTT
CAAACTGGTGGAAAGTTATATTTGATTTTAGAATATCTCAGTGGAGGTGAACTTTTTATG
CATTTAGAACGTGAAGGAATATTTTTAGAGGACACTACATGCTTTTATTTGAATGAGATA
GTACTAGCATTAGAACATCTTCATTCGCTAGGAATCATTTATAGAGACCTTAAACCAGAA
AATGTCTTACTTGATGCACAAGGACATGTAAAATTAACGGATTTTGGACTTTGCAAAGAA
CATATTCATGAGGGCATAACTGCTTGGACGTTTTGTGGAACAATTGAATATATGGCACCT
GAAATATTAACGAGGGCGGGTCATGGAAAAGCAGTAGATTGGTGGAGTCTTGGTGCTCTC
ATGTATGACATGCTTACTGGTAATCCTCCCTTTAGTGCTGAAAATAGAAAGAAAACTATT
GAAACAATTCTCAAAGGAAAACTCAATCTTCCAGCCTATTTAACTCCAGATGCTAGAGAT
TTAATTCGACGCTTAATGAAAAGACAAGTTTCACAACGCTTAGGAAGTGGTCCAAATGAT
GGGTTAGAAGTCCGTTCTCATCCATTTTTCAAAAATGTAAATTGGAAAGATGTATTTGAG
AGACGTCTTGAACCTCCAATTAAGCCTGTTCTTAGAAGTGAAGATGATGTATCACAATTT
GATACAAAATTTACAAAGCAAATTCCCGTTGATTCACCTGAAGAATCTACTCTTAGTGAG
AGTGCAAACATGATGTTTCAAGGTTTTACTTATGTTGCACCTTCTGTATTGGAGGAAATG
AGCCATCAACGCATAATAACGGCTAGAAGTCCTCGCCGTACACCACGTCATAGGGAAGAT
CACATGAGCCTTAGAGTTTTTCCTGGAACATCGACAGCCTCAATCGCCAGTCAACCACAA
CATTTTTACCCAAATTCTTCGCATAATCAAAATAACAATTCAATGCAACCGCATAGGAAT
CCTCTTTTTGCTGGTAATCCACATTTACAAGGATTTAGTAATGCTCCATCAGAAGATTCG
ATGTCAATGGACATAAACAACTCATAG

>g11364.t1 Gene=g11364 Length=488
MADVFQFEIDETHQEANIDADDNDEVIIDDMDLETELNMNKNMDLETETIQLSEEIVNPP
GRKLGPQDFELKKVLGKGGYGKVFQVKKVTGKDAGNFFAMKVLKKASIVRNQKDTAHTRA
ERNILEAVKHPFIVELVYAFQTGGKLYLILEYLSGGELFMHLEREGIFLEDTTCFYLNEI
VLALEHLHSLGIIYRDLKPENVLLDAQGHVKLTDFGLCKEHIHEGITAWTFCGTIEYMAP
EILTRAGHGKAVDWWSLGALMYDMLTGNPPFSAENRKKTIETILKGKLNLPAYLTPDARD
LIRRLMKRQVSQRLGSGPNDGLEVRSHPFFKNVNWKDVFERRLEPPIKPVLRSEDDVSQF
DTKFTKQIPVDSPEESTLSESANMMFQGFTYVAPSVLEEMSHQRIITARSPRRTPRHRED
HMSLRVFPGTSTASIASQPQHFYPNSSHNQNNNSMQPHRNPLFAGNPHLQGFSNAPSEDS
MSMDINNS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g11364.t1 CDD cd05584 STKc_p70S6K 73 394 0.0
6 g11364.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 69 365 4.9E-129
7 g11364.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 157 352 4.9E-129
3 g11364.t1 PANTHER PTHR24351:SF171 RIBOSOMAL PROTEIN S6 KINASE BETA-2 8 403 4.4E-201
4 g11364.t1 PANTHER PTHR24351 RIBOSOMAL PROTEIN S6 KINASE 8 403 4.4E-201
8 g11364.t1 PIRSF PIRSF000605 RPS6_kin_1 1 482 5.8E-246
2 g11364.t1 Pfam PF00069 Protein kinase domain 69 329 1.7E-68
1 g11364.t1 Pfam PF00433 Protein kinase C terminal domain 352 391 3.1E-9
11 g11364.t1 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 75 101 -
10 g11364.t1 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 192 204 -
15 g11364.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 69 330 51.085
14 g11364.t1 ProSiteProfiles PS51285 AGC-kinase C-terminal domain profile. 331 401 17.362
13 g11364.t1 SMART SM00220 serkin_6 69 330 2.2E-100
12 g11364.t1 SMART SM00133 pkinase_C_6 331 393 2.9E-20
5 g11364.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 66 388 1.75E-90

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:0007165 signal transduction BP
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