General information for g11364.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ribosomal protein S6 kinase beta-1.
Parent gene
- The parent gene g11364 is located on chr_1: 15812752..15813654 (- strand)
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.t4 | TTS | g11364.t4 | 15810135 | 15810135 |
| chr_1 | g11364 | g11364.t4 | isoform | g11364.t4 | 15810684 | 15813654 |
| chr_1 | g11364 | g11364.t4 | exon | g11364.t4.exon1 | 15810684 | 15811573 |
| chr_1 | g11364 | g11364.t4 | cds | g11364.t4.CDS1 | 15811160 | 15811573 |
| chr_1 | g11364 | g11364.t4 | exon | g11364.t4.exon2 | 15811646 | 15811755 |
| chr_1 | g11364 | g11364.t4 | cds | g11364.t4.CDS2 | 15811646 | 15811755 |
| chr_1 | g11364 | g11364.t4 | exon | g11364.t4.exon3 | 15811820 | 15811888 |
| chr_1 | g11364 | g11364.t4 | cds | g11364.t4.CDS3 | 15811820 | 15811888 |
| chr_1 | g11364 | g11364.t4 | exon | g11364.t4.exon4 | 15811954 | 15812114 |
| chr_1 | g11364 | g11364.t4 | cds | g11364.t4.CDS4 | 15811954 | 15812114 |
| chr_1 | g11364 | g11364.t4 | exon | g11364.t4.exon5 | 15812179 | 15812293 |
| chr_1 | g11364 | g11364.t4 | cds | g11364.t4.CDS5 | 15812179 | 15812293 |
| chr_1 | g11364 | g11364.t4 | exon | g11364.t4.exon6 | 15812358 | 15812422 |
| chr_1 | g11364 | g11364.t4 | cds | g11364.t4.CDS6 | 15812358 | 15812422 |
| chr_1 | g11364 | g11364.t4 | exon | g11364.t4.exon7 | 15812488 | 15812542 |
| chr_1 | g11364 | g11364.t4 | cds | g11364.t4.CDS7 | 15812488 | 15812542 |
| chr_1 | g11364 | g11364.t4 | exon | g11364.t4.exon8 | 15812600 | 15812678 |
| chr_1 | g11364 | g11364.t4 | cds | g11364.t4.CDS8 | 15812600 | 15812678 |
| chr_1 | g11364 | g11364.t4 | exon | g11364.t4.exon9 | 15812744 | 15812999 |
| chr_1 | g11364 | g11364.t4 | cds | g11364.t4.CDS9 | 15812744 | 15812999 |
| chr_1 | g11364 | g11364.t4 | exon | g11364.t4.exon10 | 15813065 | 15813105 |
| chr_1 | g11364 | g11364.t4 | cds | g11364.t4.CDS10 | 15813065 | 15813105 |
| chr_1 | g11364 | g11364.t4 | exon | g11364.t4.exon11 | 15813565 | 15813654 |
| chr_1 | g11364 | g11364.t4 | cds | g11364.t4.CDS11 | 15813565 | 15813654 |
| chr_1 | g11364 | g11364.t4 | TSS | g11364.t4 | 15813931 | 15813931 |
Sequences
>g11364.t4 Gene=g11364 Length=1931
ATGGCCGATGTATTTCAATTTGAGATCGATGAAACGCATCAGGAGGCGAATATTGATGCA
GACGATAATGATGAAGTTATTATAGATGATATGGATCTGGAAACGGAATTAAATATGAAT
AAAAATATGGACCTTGAAACTGAAACGATACAATTAAGCGAAGAAATCGTAAACCCGCCA
GGAAGAAAATTGGGACCGCAAGATTTTGAACTCAAAAAAGTGCTAGGAAAGGGAGGGTAC
GGAAAGGTATTTCAAGTGAAAAAAGTTACAGGTAAAGACGCAGGTAACTTTTTTGCAATG
AAGGTACTCAAAAAAGCATCTATTGTTCGAAATCAAAAAGACACAGCTCATACAAGAGCC
GAAAGAAATATATTGGAAGCTGTAAAACATCCATTTATTGTAGAATTAGTTTATGCATTT
CAAACTGGTGGAAAGTTATATTTGATTTTAGAATATCTCAGTGGAGGTGAACTTTTTATG
CATTTAGAACGTGAAGGAATATTTTTAGAGGACACTACATGCTTTTATTTGAATGAGATA
GTACTAGCATTAGAACATCTTCATTCGCTAGGAATCATTTATAGAGAAAATGTCTTACTT
GATGCACAAGGACATGTAAAATTAACGGATTTTGGACTTTGCAAAGAACATATTCATGAG
GGCATAACTGCTTGGACGTTTTGTGGAACAATTGAATATATGGCACCTGAAATATTAACG
AGGGCGGGTCATGGAAAAGCAGTAGATTGGTGGAGTCTTGGTGCTCTCATGTATGACATG
CTTACTGGTAATCCTCCCTTTAGTGCTGAAAATAGAAAGAAAACTATTGAAACAATTCTC
AAAGGAAAACTCAATCTTCCAGCCTATTTAACTCCAGATGCTAGAGATTTAATTCGACGC
TTAATGAAAAGACAAGTTTCACAACGCTTAGGAAGTGGTCCAAATGATGGGTTAGAAGTC
CGTTCTCATCCATTTTTCAAAAATGTAAATTGGAAAGATGTATTTGAGAGACGTCTTGAA
CCTCCAATTAAGCCTGTTCTTAGAAGTGAAGATGATGTATCACAATTTGATACAAAATTT
ACAAAGCAAATTCCCGTTGATTCACCTGAAGAATCTACTCTTAGTGAGAGTGCAAACATG
ATGTTTCAAGGTTTTACTTATGTTGCACCTTCTGTATTGGAGGAAATGAGCCATCAACGC
ATAATAACGGCTAGAAGTCCTCGCCGTACACCACGTCATAGGGAAGATCACATGAGCCTT
AGAGTTTTTCCTGGAACATCGACAGCCTCAATCGCCAGTCAACCACAACATTTTTACCCA
AATTCTTCGCATAATCAAAATAACAATTCAATGCAACCGCATAGGAATCCTCTTTTTGCT
GGTAATCCACATTTACAAGGATTTAGTAATGCTCCATCAGAAGATTCGATGTCAATGGAC
ATAAACAACTCATAGTTAAATAATTTCAGTTATGCATTGTGAATATAAATATATATAAAT
ATGAATGCCATAGAAATTCATAATTTCTTTATGAATTTTTTCCTCTCTCATATTTGACAG
CAGTGCAACTGTAATTAATTTTTTTATTATAAGACTATATTTTGAACGAAACAAAAAAAT
ATAACGTTGAATTTTCATAATTTTTTAATACAATCAAAAGAAAAGATCGAGTAAATTTTT
GATTAACTGAGATAGCGTTTTTTAATAAATTAATGGAAAGAACGCAATGATAAATAACAC
ACTCTTAGATAGAATAAAAATTTTTAATTATTAAATAATACGTAATATAATTTTTTAAAA
CGAATTTAAAACACACGATAAAATTTCTTCCCCATTGTTTTGCCCACTAATTTTTAAGTT
TATTGATTCAATTGAGATATATTATAGCCAAAGCACAAAAATATGAATGAAATGATTAAT
AAATCAACTTG
>g11364.t4 Gene=g11364 Length=484
MADVFQFEIDETHQEANIDADDNDEVIIDDMDLETELNMNKNMDLETETIQLSEEIVNPP
GRKLGPQDFELKKVLGKGGYGKVFQVKKVTGKDAGNFFAMKVLKKASIVRNQKDTAHTRA
ERNILEAVKHPFIVELVYAFQTGGKLYLILEYLSGGELFMHLEREGIFLEDTTCFYLNEI
VLALEHLHSLGIIYRENVLLDAQGHVKLTDFGLCKEHIHEGITAWTFCGTIEYMAPEILT
RAGHGKAVDWWSLGALMYDMLTGNPPFSAENRKKTIETILKGKLNLPAYLTPDARDLIRR
LMKRQVSQRLGSGPNDGLEVRSHPFFKNVNWKDVFERRLEPPIKPVLRSEDDVSQFDTKF
TKQIPVDSPEESTLSESANMMFQGFTYVAPSVLEEMSHQRIITARSPRRTPRHREDHMSL
RVFPGTSTASIASQPQHFYPNSSHNQNNNSMQPHRNPLFAGNPHLQGFSNAPSEDSMSMD
INNS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g11364.t4 | CDD | cd05584 | STKc_p70S6K | 73 | 390 | 0.0 |
| 6 | g11364.t4 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 69 | 361 | 1.6E-121 |
| 7 | g11364.t4 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 157 | 348 | 1.6E-121 |
| 3 | g11364.t4 | PANTHER | PTHR24351:SF171 | RIBOSOMAL PROTEIN S6 KINASE BETA-2 | 8 | 399 | 3.1E-194 |
| 4 | g11364.t4 | PANTHER | PTHR24351 | RIBOSOMAL PROTEIN S6 KINASE | 8 | 399 | 3.1E-194 |
| 8 | g11364.t4 | PIRSF | PIRSF000605 | RPS6_kin_1 | 1 | 478 | 4.5E-239 |
| 2 | g11364.t4 | Pfam | PF00069 | Protein kinase domain | 69 | 325 | 4.2E-61 |
| 1 | g11364.t4 | Pfam | PF00433 | Protein kinase C terminal domain | 348 | 387 | 3.0E-9 |
| 10 | g11364.t4 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 75 | 101 | - |
| 13 | g11364.t4 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 69 | 326 | 44.131 |
| 12 | g11364.t4 | ProSiteProfiles | PS51285 | AGC-kinase C-terminal domain profile. | 327 | 397 | 17.362 |
| 11 | g11364.t4 | SMART | SM00133 | pkinase_C_6 | 327 | 389 | 2.9E-20 |
| 5 | g11364.t4 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 66 | 384 | 3.14E-83 |
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
- This transcript has been annotated with K04688 (ribosomal protein S6 kinase beta)
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.
