Gene loci information

Transcript annotation

  • This transcript has been annotated as Casein kinase I isoform gamma-3.

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_3 g2216 g2216.t1 isoform g2216.t1 16040661 16048844
chr_3 g2216 g2216.t1 exon g2216.t1.exon1 16040661 16040734
chr_3 g2216 g2216.t1 cds g2216.t1.CDS1 16040661 16040734
chr_3 g2216 g2216.t1 exon g2216.t1.exon2 16040797 16040845
chr_3 g2216 g2216.t1 cds g2216.t1.CDS2 16040797 16040845
chr_3 g2216 g2216.t1 exon g2216.t1.exon3 16041587 16041735
chr_3 g2216 g2216.t1 cds g2216.t1.CDS3 16041587 16041735
chr_3 g2216 g2216.t1 exon g2216.t1.exon4 16043119 16043229
chr_3 g2216 g2216.t1 cds g2216.t1.CDS4 16043119 16043229
chr_3 g2216 g2216.t1 exon g2216.t1.exon5 16045793 16045962
chr_3 g2216 g2216.t1 cds g2216.t1.CDS5 16045793 16045962
chr_3 g2216 g2216.t1 exon g2216.t1.exon6 16048798 16048844
chr_3 g2216 g2216.t1 cds g2216.t1.CDS6 16048798 16048844
chr_3 g2216 g2216.t1 TSS g2216.t1 NA NA
chr_3 g2216 g2216.t1 TTS g2216.t1 NA NA

Sequences

>g2216.t1 Gene=g2216 Length=600
ATGCAACGAAAAGATCAACGCGACATGTCTCGACAAGCAGCAGCAAGTGGTGCAAGTGGC
TCTGGAGCTCCAGGAGCTGCACAACGTGGTGGATCCTCTAACAATATGTATTCAGCACGT
CATTCAGTTAGCTCATCAAGCGGTGTTCTAATGGTCGGACCAAATTTTCGCGTTGGAAAG
AAAATTGGTTGTGGTAATTTTGGTGAATTGAGATTGGGAAAGAATCTATACAACAATGAA
CATGTAGCAATAAAAATGGAGCCAATGAAATCAAAAGCGCCCCAGTTACATTTAGAGTAT
AGATTTTATAAATTATTAGGATCACACGATGGATTACCCGCAATATATTACTTTGGTCCT
TGCGGTAAATACAATGCACTCGTCATGGAACTACTTGGTCCGTCACTTGAAGATTTATTT
GATATGTGTGGCCGTCGTTTTGGGTTGAAAACTGTTATCATGATAGCAATACAATTACTT
CATAGAATCGAGTATGTGCATAGTCGTCATTTAATTTATAGAGATGTAAAACCGGAAAAT
TTTTTGATCGGTAGAAGTTCAAATAAACGTGATAAAATAATACATATAATAGGTGAGTGA

>g2216.t1 Gene=g2216 Length=199
MQRKDQRDMSRQAAASGASGSGAPGAAQRGGSSNNMYSARHSVSSSSGVLMVGPNFRVGK
KIGCGNFGELRLGKNLYNNEHVAIKMEPMKSKAPQLHLEYRFYKLLGSHDGLPAIYYFGP
CGKYNALVMELLGPSLEDLFDMCGRRFGLKTVIMIAIQLLHRIEYVHSRHLIYRDVKPEN
FLIGRSSNKRDKIIHIIGE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g2216.t1 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 46 132 9.1E-39
6 g2216.t1 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 133 198 6.6E-16
10 g2216.t1 MobiDBLite mobidb-lite consensus disorder prediction 1 33 -
2 g2216.t1 PANTHER PTHR11909:SF151 CASEIN KINASE I ISOFORM GAMMA-3 35 197 6.7E-88
3 g2216.t1 PANTHER PTHR11909 CASEIN KINASE-RELATED 35 197 6.7E-88
1 g2216.t1 Pfam PF00069 Protein kinase domain 57 187 4.3E-16
8 g2216.t1 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 62 85 -
7 g2216.t1 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 171 183 -
11 g2216.t1 ProSiteProfiles PS50011 Protein kinase domain profile. 56 199 19.623
9 g2216.t1 SMART SM00220 serkin_6 56 194 8.0E-5
4 g2216.t1 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 52 197 3.01E-39

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