Gene loci information

Transcript annotation

  • This transcript has been annotated as Ribosomal protein S6 kinase alpha-2.

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 g10168 g10168.t1 TSS g10168.t1 8025813 8025813
chr_1 g10168 g10168.t1 isoform g10168.t1 8025954 8030638
chr_1 g10168 g10168.t1 exon g10168.t1.exon1 8025954 8026007
chr_1 g10168 g10168.t1 cds g10168.t1.CDS1 8025954 8026007
chr_1 g10168 g10168.t1 exon g10168.t1.exon2 8027701 8028322
chr_1 g10168 g10168.t1 cds g10168.t1.CDS2 8027701 8028322
chr_1 g10168 g10168.t1 exon g10168.t1.exon3 8028389 8028415
chr_1 g10168 g10168.t1 cds g10168.t1.CDS3 8028389 8028415
chr_1 g10168 g10168.t1 exon g10168.t1.exon4 8028503 8028669
chr_1 g10168 g10168.t1 cds g10168.t1.CDS4 8028503 8028669
chr_1 g10168 g10168.t1 exon g10168.t1.exon5 8028737 8029378
chr_1 g10168 g10168.t1 cds g10168.t1.CDS5 8028737 8029378
chr_1 g10168 g10168.t1 exon g10168.t1.exon6 8029437 8029542
chr_1 g10168 g10168.t1 cds g10168.t1.CDS6 8029437 8029542
chr_1 g10168 g10168.t1 exon g10168.t1.exon7 8029598 8029715
chr_1 g10168 g10168.t1 cds g10168.t1.CDS7 8029598 8029715
chr_1 g10168 g10168.t1 exon g10168.t1.exon8 8029771 8029943
chr_1 g10168 g10168.t1 cds g10168.t1.CDS8 8029771 8029943
chr_1 g10168 g10168.t1 exon g10168.t1.exon9 8030009 8030151
chr_1 g10168 g10168.t1 cds g10168.t1.CDS9 8030009 8030151
chr_1 g10168 g10168.t1 exon g10168.t1.exon10 8030208 8030475
chr_1 g10168 g10168.t1 cds g10168.t1.CDS10 8030208 8030475
chr_1 g10168 g10168.t1 exon g10168.t1.exon11 8030568 8030638
chr_1 g10168 g10168.t1 cds g10168.t1.CDS11 8030568 8030638
chr_1 g10168 g10168.t1 TTS g10168.t1 8031602 8031602

Sequences

>g10168.t1 Gene=g10168 Length=2391
ATGCCATTAGCCGGAAAAACTTTGAATATATGGCCAATAAAGCAAGAAGTCGCGAGCTCA
TCTCAGCAATTACAAGGCTTAGAGATGGTTGTCGACGATGGATCGGTCATCAAATATCCA
CAAAATACGATCAATATTAACATTAATAACAATAATAATAATAACTCAATGGATAAGCTT
CAAATTTCTGGACATGACGATGATTCTGATGACGTTGAGATGAAATCTGACGATTTAGTT
GTAGAAGTAAAGGATCTCGTAAAAGATGGTCATGAAAAAGCGGATCCGTCACAATTTGAG
CTGCTTAAAGTCCTCGGTGAAGGCAGCTTTGGAAAAGTTTTTCTTGTGAGAAAAATTGTT
GGACTTGATGCTGGTACATTATATGCTATGAAAGTACTAAAGAAAGCAACATTGAAAGTC
AAGGACCGAATGAGATCGACAAATGAGAGAAATATTTTAGCCGATATTGCTGTGGGTCAT
TCCTTTATAGTTAAGCTACATTACGCATTTCAAACTCCTGGCAAACTCTATCTCATTCTC
GATTTCCTTCGCGGTGGTGATTTATTCACTCGATTAAGCAAGGAAGTCATGTTCACAGAA
GAGGATGTTAAATTTTACCTAGCAGAGCTAGCACTCGCTTTAAATCATCTTCATTCACTT
GGAATTATTTATCGAGATTTGAAACCGGAGAATATTTTATTAGATGCTGATGGTCATATT
GCACTAACTGATTTTGGTCTATCAAAAATTCCACTTGGTGACTCGAAAACTTATAGTTTT
TGTGGAACTGTAGAATATATGGCGCCTGAAGTTGTAAATCGTAAAGGACATACTTTTGCC
GCTGACTGGTGGTCATTTGGTGTACTTATGTATGAAATGCTTACTGGGAATTTGCCTTTT
CATGGAACAAACAGACAAGACACGATGAATCAAATATTAAAGACAAAATTGGGTATGCCA
GAAAATCTATCTCCAGAAGCACAATCGCTTTTGCGAGCATTATTCAAAAGAAATCCTCAA
AATCGTCTTGGCGCAGGAAGTAATGGCATTGAAGATATTAAACGACACGAGTTCTTTGCT
ACAATTGATTGGGATGCATTGATGGCAAAAAAAGTTCGAGCTCCATTTATTCCAAGTGTA
TCGCGTGCCGACGATACTTTTTATTTTGATTCTGATTACACAAACCGCGATCCACACGAT
TCCCCATCAGTACCCGTTTCAGCAAGTGCTCATGAAATCTTTCGAGGATTTTCATTCGTT
GCGCCATGTCTTCTCGATGAAGGTGAAGAAGAAGCCGGTGCAATGAATGTCAACAACAAC
GAGCGACAATCATTCCAATCATCTTATGAAATTCCGGGTGTACAACCACATTCCATTCAC
GATGAATATCAACTCAAAGAAGTACTTGGTAAAGGCACATTTTCAGTATGTAAATTGTGC
GAACATAAAACAACTAAGAAACAATATGCTGTAAAAATTATTGATAAAACACGCCATGAT
TGTAGAGAAGAGGTTGATATTCTCTTAAGATATGGCAACCATCCGAATATTGTAACACTT
TATCGCGTATTTGAAGATACATCTCGTTGTGTGTACTTAGTTATGGAATATTTAAAGGGT
GGTGAATTACTCGATCGAATTTTGTCAATACAATTTAGTGAACAAGAGTCGGCTGCTGTT
TTGAAAACGGTAGTATCAGCTGTTTCATATCTACATGATCACGGTGTTGTACACAGGGAT
CTTAAACCTTCTAATTTACTGTATGCTTCCATTAATCATACGCCTGATTCATTGAGACTA
TGCGACCTGGGTTTTGCAAAACAGCTAAGAGCTGACAATGGCTTATTAATGACTCCTTGT
TATACAGCAAACTTTGTTGCACCAGAAGTATTGAAACGTCAAGGATATGATCAATTGTGT
GACATTTGGTCATTGGGAGTGTTACTTTATATTACTCTTAGTGGAAGAACGCCTTTTGCC
AGCACGCCTAATGATGAACCTGAGACAATTTTAAAAAGAATTGGAAGTGGTCAAATTGAT
TTAGATAATGGCCGATGGGCCACAATTTCTGTAGAAGCGAAAGAATTGATTAGTCATATG
ATGCATATTGTACCATCAAAACGTCCAACAGCAGCGCAAATTTTAAGACATCCATGGACC
GTGAGACAGTCACATGCATTTGATTTGAGATCTCAACAAACGGTTTCACATTCACTTCAC
CATGTCGTACAGAAACCAACAACAAAAGATATAAGTGAAATTAAGGGTACTGTTAATAAT
GTTTTCCGTGCTATAAATTCGCCTCAAGCACTCGGAATTGGTGTTGGACCGGTAACTATG
AGTGAATTAGCACGCCGAAGAAGAAGAGGAGCTGAAAAAGGGCATAACTGA

>g10168.t1 Gene=g10168 Length=796
MPLAGKTLNIWPIKQEVASSSQQLQGLEMVVDDGSVIKYPQNTINININNNNNNNSMDKL
QISGHDDDSDDVEMKSDDLVVEVKDLVKDGHEKADPSQFELLKVLGEGSFGKVFLVRKIV
GLDAGTLYAMKVLKKATLKVKDRMRSTNERNILADIAVGHSFIVKLHYAFQTPGKLYLIL
DFLRGGDLFTRLSKEVMFTEEDVKFYLAELALALNHLHSLGIIYRDLKPENILLDADGHI
ALTDFGLSKIPLGDSKTYSFCGTVEYMAPEVVNRKGHTFAADWWSFGVLMYEMLTGNLPF
HGTNRQDTMNQILKTKLGMPENLSPEAQSLLRALFKRNPQNRLGAGSNGIEDIKRHEFFA
TIDWDALMAKKVRAPFIPSVSRADDTFYFDSDYTNRDPHDSPSVPVSASAHEIFRGFSFV
APCLLDEGEEEAGAMNVNNNERQSFQSSYEIPGVQPHSIHDEYQLKEVLGKGTFSVCKLC
EHKTTKKQYAVKIIDKTRHDCREEVDILLRYGNHPNIVTLYRVFEDTSRCVYLVMEYLKG
GELLDRILSIQFSEQESAAVLKTVVSAVSYLHDHGVVHRDLKPSNLLYASINHTPDSLRL
CDLGFAKQLRADNGLLMTPCYTANFVAPEVLKRQGYDQLCDIWSLGVLLYITLSGRTPFA
STPNDEPETILKRIGSGQIDLDNGRWATISVEAKELISHMMHIVPSKRPTAAQILRHPWT
VRQSHAFDLRSQQTVSHSLHHVVQKPTTKDISEIKGTVNNVFRAINSPQALGIGVGPVTM
SELARRRRRGAEKGHN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g10168.t1 CDD cd05582 STKc_RSK_N 103 420 0.0
15 g10168.t1 CDD cd14091 STKc_RSK_C 462 766 0.0
11 g10168.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 97 396 2.0E-121
13 g10168.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 187 380 2.0E-121
10 g10168.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 465 537 1.6E-93
12 g10168.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 500 719 1.6E-93
5 g10168.t1 PANTHER PTHR24351 RIBOSOMAL PROTEIN S6 KINASE 65 476 2.5E-265
7 g10168.t1 PANTHER PTHR24351:SF110 NON-SPECIFIC SERINE/THREONINE PROTEIN KINASE 65 476 2.5E-265
4 g10168.t1 PANTHER PTHR24351 RIBOSOMAL PROTEIN S6 KINASE 436 708 2.5E-265
6 g10168.t1 PANTHER PTHR24351:SF110 NON-SPECIFIC SERINE/THREONINE PROTEIN KINASE 436 708 2.5E-265
14 g10168.t1 PIRSF PIRSF000606 RPS6_kin_2 49 796 1.5E-298
3 g10168.t1 Pfam PF00069 Protein kinase domain 99 359 4.2E-69
1 g10168.t1 Pfam PF00433 Protein kinase C terminal domain 383 419 4.4E-5
2 g10168.t1 Pfam PF00069 Protein kinase domain 463 719 2.0E-67
20 g10168.t1 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 105 131 -
17 g10168.t1 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 222 234 -
19 g10168.t1 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 469 492 -
18 g10168.t1 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 576 588 -
26 g10168.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 99 359 52.781
24 g10168.t1 ProSiteProfiles PS51285 AGC-kinase C-terminal domain profile. 360 429 15.808
25 g10168.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 463 720 47.41
23 g10168.t1 SMART SM00220 serkin_6 99 359 2.1E-103
21 g10168.t1 SMART SM00133 pkinase_C_6 360 421 7.4E-16
22 g10168.t1 SMART SM00220 serkin_6 463 720 7.9E-98
9 g10168.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 97 417 1.11E-92
8 g10168.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 453 747 9.31E-79

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:0000287 magnesium ion binding MF
GO:0005524 ATP binding MF
GO:0004674 protein serine/threonine kinase activity MF
GO:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation BP
GO:0035556 intracellular signal transduction 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