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.t2 isoform g2216.t2 16040661 16048844
chr_3 g2216 g2216.t2 exon g2216.t2.exon1 16040661 16040734
chr_3 g2216 g2216.t2 cds g2216.t2.CDS1 16040661 16040734
chr_3 g2216 g2216.t2 exon g2216.t2.exon2 16040797 16040845
chr_3 g2216 g2216.t2 cds g2216.t2.CDS2 16040797 16040845
chr_3 g2216 g2216.t2 exon g2216.t2.exon3 16042815 16042966
chr_3 g2216 g2216.t2 cds g2216.t2.CDS3 16042815 16042966
chr_3 g2216 g2216.t2 exon g2216.t2.exon4 16043119 16043229
chr_3 g2216 g2216.t2 cds g2216.t2.CDS4 16043119 16043229
chr_3 g2216 g2216.t2 exon g2216.t2.exon5 16045793 16045962
chr_3 g2216 g2216.t2 cds g2216.t2.CDS5 16045793 16045962
chr_3 g2216 g2216.t2 exon g2216.t2.exon6 16048798 16048844
chr_3 g2216 g2216.t2 cds g2216.t2.CDS6 16048798 16048844
chr_3 g2216 g2216.t2 TSS g2216.t2 NA NA
chr_3 g2216 g2216.t2 TTS g2216.t2 NA NA

Sequences

>g2216.t2 Gene=g2216 Length=603
ATGCAACGAAAAGATCAACGCGACATGTCTCGACAAGCAGCAGCAAGTGGTGCAAGTGGC
TCTGGAGCTCCAGGAGCTGCACAACGTGGTGGATCCTCTAACAATATGTATTCAGCACGT
CATTCAGTTAGCTCATCAAGCGGTGTTCTAATGGTCGGACCAAATTTTCGCGTTGGAAAG
AAAATTGGTTGTGGTAATTTTGGTGAATTGAGATTGGGAAAGAATCTATACAACAATGAA
CATGTAGCAATAAAAATGGAGCCAATGAAATCAAAAGCGCCCCAGTTACATTTAGAGTAT
AGATTTTATAAATTATTAGGATCACACGAGGGAATAGCGCGAGTTTACCATTTGGGAACT
TGCGGTGGACGTTACAATGCAATGGTTTTAGAATTATTGGGACCATCACTTGAAGATTTG
TTTACAAGTTGTGGACGAAAATTCTCATTGAAGACTGTTCTCATGATTGCTAAACAACTC
CTTCATAGAATCGAGTATGTGCATAGTCGTCATTTAATTTATAGAGATGTAAAACCGGAA
AATTTTTTGATCGGTAGAAGTTCAAATAAACGTGATAAAATAATACATATAATAGGTGAG
TGA

>g2216.t2 Gene=g2216 Length=200
MQRKDQRDMSRQAAASGASGSGAPGAAQRGGSSNNMYSARHSVSSSSGVLMVGPNFRVGK
KIGCGNFGELRLGKNLYNNEHVAIKMEPMKSKAPQLHLEYRFYKLLGSHEGIARVYHLGT
CGGRYNAMVLELLGPSLEDLFTSCGRKFSLKTVLMIAKQLLHRIEYVHSRHLIYRDVKPE
NFLIGRSSNKRDKIIHIIGE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g2216.t2 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 46 133 4.4E-36
6 g2216.t2 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 134 199 2.8E-17
10 g2216.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 33 -
2 g2216.t2 PANTHER PTHR11909:SF151 CASEIN KINASE I ISOFORM GAMMA-3 35 198 1.2E-82
3 g2216.t2 PANTHER PTHR11909 CASEIN KINASE-RELATED 35 198 1.2E-82
1 g2216.t2 Pfam PF00069 Protein kinase domain 57 188 1.0E-17
8 g2216.t2 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 62 85 -
7 g2216.t2 ProSitePatterns PS00108 Serine/Threonine protein kinases active-site signature. 172 184 -
11 g2216.t2 ProSiteProfiles PS50011 Protein kinase domain profile. 56 200 20.909
9 g2216.t2 SMART SM00220 serkin_6 56 195 2.9E-5
4 g2216.t2 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 52 198 1.22E-38

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