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 g2213 g2213.t2 TTS g2213.t2 16029787 16029787
chr_3 g2213 g2213.t2 isoform g2213.t2 16030054 16036742
chr_3 g2213 g2213.t2 exon g2213.t2.exon1 16030054 16030165
chr_3 g2213 g2213.t2 cds g2213.t2.CDS1 16030054 16030165
chr_3 g2213 g2213.t2 exon g2213.t2.exon2 16030247 16030294
chr_3 g2213 g2213.t2 cds g2213.t2.CDS2 16030247 16030294
chr_3 g2213 g2213.t2 exon g2213.t2.exon3 16030361 16030467
chr_3 g2213 g2213.t2 cds g2213.t2.CDS3 16030361 16030467
chr_3 g2213 g2213.t2 exon g2213.t2.exon4 16035560 16035640
chr_3 g2213 g2213.t2 cds g2213.t2.CDS4 16035560 16035640
chr_3 g2213 g2213.t2 exon g2213.t2.exon5 16036233 16036403
chr_3 g2213 g2213.t2 cds g2213.t2.CDS5 16036233 16036403
chr_3 g2213 g2213.t2 exon g2213.t2.exon6 16036464 16036742
chr_3 g2213 g2213.t2 cds g2213.t2.CDS6 16036464 16036742
chr_3 g2213 g2213.t2 TSS g2213.t2 NA NA

Sequences

>g2213.t2 Gene=g2213 Length=798
ATGATGTGTAGTTTCGGACTTGCCAAGGAGTACATTGATTTAGACACAAATAAACATATT
CCATATCGAGAACATAAATCACTAACAGGAACTGCTCGATATATGTCAATCAATACACAT
ATGGGTAAAGAACAGTCACGACGCGATGACTTAGAAGCACTTGGTCATATGTTTATGTAT
TTTCTTCGTGGATCATTACCTTGGCAAGGATTAAAAGCAGATACATTAAAAGAACGATAT
CAGAAAATTGGTGAAACCAAGCGTGCTACTCCTATAGAAGTATTATGTGAAAATCATCCT
GAAGAATTTGCAACATACTTGCGAAGTGTTCGAAGATTAGACTTTTTCGAAACTCCTGAT
TATGAATACTACCGTAAACTATTTCAAGATCTCTTTGAGCGAAAAGGCTATGTAGACGAT
GGCGAATTCGATTGGACGGGAAAGACAATGTCAACTCCAGTGGGGTCGTTACAAACAGGA
CACGAGGTCATTGTCTCACCAAATCGCGATAAGCATACACCCGCCAATAAGGTGGTGAGC
TCAACAAATGGAGAATTGAATGCTGATGATCCAACAGCGGGACATTCAAATACACCAATA
ACACAGCAACAGGAAGTTGAAATGGTTGATGACACAAAATGCTGTTGTTTCTTTAAACGA
AAAAAGAAGAAGTCACCACGCACTAATTGCCTCAATCCATCACAGGACTTCATTCAAGCA
TCACAGCATACAATTCGATTTCCATCAGCATCCGTTTTAACTTCAACACCAACCAATACA
CCTACACTTCCAATATAA

>g2213.t2 Gene=g2213 Length=265
MMCSFGLAKEYIDLDTNKHIPYREHKSLTGTARYMSINTHMGKEQSRRDDLEALGHMFMY
FLRGSLPWQGLKADTLKERYQKIGETKRATPIEVLCENHPEEFATYLRSVRRLDFFETPD
YEYYRKLFQDLFERKGYVDDGEFDWTGKTMSTPVGSLQTGHEVIVSPNRDKHTPANKVVS
STNGELNADDPTAGHSNTPITQQQEVEMVDDTKCCCFFKRKKKKSPRTNCLNPSQDFIQA
SQHTIRFPSASVLTSTPTNTPTLPI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g2213.t2 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 1 192 1.2E-53
7 g2213.t2 MobiDBLite mobidb-lite consensus disorder prediction 172 195 -
6 g2213.t2 MobiDBLite mobidb-lite consensus disorder prediction 173 195 -
3 g2213.t2 PANTHER PTHR11909:SF157 CASEIN KINASE I ISOFORM GAMMA-2 4 219 1.4E-104
4 g2213.t2 PANTHER PTHR11909 CASEIN KINASE-RELATED 4 219 1.4E-104
1 g2213.t2 Pfam PF12605 Casein kinase 1 gamma C terminal 148 177 2.5E-6
2 g2213.t2 Pfam PF12605 Casein kinase 1 gamma C terminal 177 200 2.2E-9
9 g2213.t2 ProSiteProfiles PS50011 Protein kinase domain profile. 1 132 9.701
5 g2213.t2 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 2 145 1.83E-35

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:0004674 protein serine/threonine kinase activity MF
GO:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation 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