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.t3 TSS g10168.t3 8025813 8025813
chr_1 g10168 g10168.t3 isoform g10168.t3 8025954 8028877
chr_1 g10168 g10168.t3 exon g10168.t3.exon1 8025954 8026007
chr_1 g10168 g10168.t3 cds g10168.t3.CDS1 8025954 8026007
chr_1 g10168 g10168.t3 exon g10168.t3.exon2 8027701 8028322
chr_1 g10168 g10168.t3 cds g10168.t3.CDS2 8027701 8028322
chr_1 g10168 g10168.t3 exon g10168.t3.exon3 8028486 8028660
chr_1 g10168 g10168.t3 cds g10168.t3.CDS3 8028486 8028502
chr_1 g10168 g10168.t3 exon g10168.t3.exon4 8028737 8028877
chr_1 g10168 g10168.t3 TTS g10168.t3 NA NA

Sequences

>g10168.t3 Gene=g10168 Length=992
ATGCCATTAGCCGGAAAAACTTTGAATATATGGCCAATAAAGCAAGAAGTCGCGAGCTCA
TCTCAGCAATTACAAGGCTTAGAGATGGTTGTCGACGATGGATCGGTCATCAAATATCCA
CAAAATACGATCAATATTAACATTAATAACAATAATAATAATAACTCAATGGATAAGCTT
CAAATTTCTGGACATGACGATGATTCTGATGACGTTGAGATGAAATCTGACGATTTAGTT
GTAGAAGTAAAGGATCTCGTAAAAGATGGTCATGAAAAAGCGGATCCGTCACAATTTGAG
CTGCTTAAAGTCCTCGGTGAAGGCAGCTTTGGAAAAGTTTTTCTTGTGAGAAAAATTGTT
GGACTTGATGCTGGTACATTATATGCTATGAAAGTACTAAAGAAAGCAACATTGAAAGTC
AAGGACCGAATGAGATCGACAAATGAGAGAAATATTTTAGCCGATATTGCTGTGGGTCAT
TCCTTTATAGTTAAGCTACATTACGCATTTCAAACTCCTGGCAAACTCTATCTCATTCTC
GATTTCCTTCGCGGTGGTGATTTATTCACTCGATTAAGCAAGGAAGTCATGTTCACAGAA
GAGGATGTTAAATTTTACCTAGCAGAGCTAGCACTCGCTTTAAATCATCTTCATTCACTT
GGAATTATTTATCGAGTAATCCTTTTTATATAGATGCTGATGGTCATATTGCACTAACTG
ATTTTGGTCTATCAAAAATTCCACTTGGTGACTCGAAAACTTATAGTTTTTGTGGAACTG
TAGAATATATGGCGCCTGAAGTTGTAAATCGTAAAGGACATACTTTTGCCGCTGACTGGT
GGTCATTTGGTTATGAAATGCTTACTGGGAATTTGCCTTTTCATGGAACAAACAGACAAG
ACACGATGAATCAAATATTAAAGACAAAATTGGGTATGCCAGAAAATCTATCTCCAGAAG
CACAATCGCTTTTGCGAGCATTATTCAAAAGA

>g10168.t3 Gene=g10168 Length=230
MPLAGKTLNIWPIKQEVASSSQQLQGLEMVVDDGSVIKYPQNTINININNNNNNNSMDKL
QISGHDDDSDDVEMKSDDLVVEVKDLVKDGHEKADPSQFELLKVLGEGSFGKVFLVRKIV
GLDAGTLYAMKVLKKATLKVKDRMRSTNERNILADIAVGHSFIVKLHYAFQTPGKLYLIL
DFLRGGDLFTRLSKEVMFTEEDVKFYLAELALALNHLHSLGIIYRVILFI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g10168.t3 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 97 184 3.4E-49
8 g10168.t3 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 185 227 3.4E-49
2 g10168.t3 PANTHER PTHR24351 RIBOSOMAL PROTEIN S6 KINASE 58 225 2.0E-90
3 g10168.t3 PANTHER PTHR24351:SF110 NON-SPECIFIC SERINE/THREONINE PROTEIN KINASE 58 225 2.0E-90
1 g10168.t3 Pfam PF00069 Protein kinase domain 99 225 9.2E-26
6 g10168.t3 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 105 131 -
9 g10168.t3 ProSiteProfiles PS50011 Protein kinase domain profile. 99 230 24.414
5 g10168.t3 SMART SM00220 serkin_6 99 230 1.3E-8
4 g10168.t3 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 92 225 2.81E-33

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