Gene loci information

Transcript annotation

  • This transcript has been annotated as Casein kinase II subunit beta.

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 g3844 g3844.t13 TTS g3844.t13 28338845 28338845
chr_3 g3844 g3844.t13 isoform g3844.t13 28339391 28340267
chr_3 g3844 g3844.t13 exon g3844.t13.exon1 28339391 28340267
chr_3 g3844 g3844.t13 cds g3844.t13.CDS1 28339531 28340094
chr_3 g3844 g3844.t13 TSS g3844.t13 28340516 28340516

Sequences

>g3844.t13 Gene=g3844 Length=877
TATTTTTCTGAATTTACCAATGAAAAAACTTTGAATTACATATAGTTATAGCTATTTTAT
AATAAACTTTTGCTGTAAAATATCAAACATGAGTATTGCATTCGCCATATTATATTTTTC
TATCAATCTATCAATGTTCTCAAAAATCACTTTCTTTTATTCCACACAGAAAAATGAGTA
GCTCTGAAGAAGTTTCTTGGATTTCATGGTTCTGCGGTTTGCGAGGAAACGAATTTTTCT
GTGAAGTTGATGAAGATTACATTCAGGATAAGTTTAATTTGACAGGACTAAATGAGCAAG
TGCCCAACTATAGACAAGCGCTTGATATGATTCTTGATCTTGAGCCAGATGAGGATGAAA
TTGATGTTAATCCAAATCAATCAGATCTAATTGAGCAAGCTGCTGAGATGCTATATGGGC
TTATTCATGCACGCTACATTTTAACAAATCGCGGAATCGCGCAAATGATTGAAAAATACC
AGAGCGGCGACTTTGGTCATTGTCCACGCGTGTATTGTGAAAGTCAGCCAATGTTACCGT
TAGGTCTTAGCGATGTTCCTGGCGAAGCTATGGTTAAATCTTATTGCCCGAAATGCATAG
ACGTTTACACTCCAAAATCATCTCGCCACCATCATACTGATGGTGCCTATTTCGGCACTG
GCTTTCCTCATATGTTGTTTATGGTTCATCCTGAATATCGACCAAAGCGACCTGCCAACC
AATTTGTCCCAAGGTAAATATCGATTTTATACATATTTTATAATCATCGATTTTTTTAAT
TACAACACTTTCATTTGATTACCTAGGTTGTATGGATTTAAAATTCACAATTTGGCTTAT
CAAATACAATTACAAGCTGCTGCGCAATTTAAACAGC

>g3844.t13 Gene=g3844 Length=187
MSSSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPNYRQALDMILDLEPDE
DEIDVNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMIEKYQSGDFGHCPRVYCESQPM
LPLGLSDVPGEAMVKSYCPKCIDVYTPKSSRHHHTDGAYFGTGFPHMLFMVHPEYRPKRP
ANQFVPR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g3844.t13 Gene3D G3DSA:1.10.1820.10 protein kinase ck2 holoenzyme 1 106 2.9E-48
14 g3844.t13 Gene3D G3DSA:2.20.25.20 - 107 181 3.1E-38
2 g3844.t13 PANTHER PTHR11740:SF0 CASEIN KINASE II SUBUNIT BETA 1 187 6.4E-96
3 g3844.t13 PANTHER PTHR11740 CASEIN KINASE II SUBUNIT BETA 1 187 6.4E-96
8 g3844.t13 PRINTS PR00472 Casein kinase II regulatory subunit family signature 8 24 6.0E-70
4 g3844.t13 PRINTS PR00472 Casein kinase II regulatory subunit family signature 25 39 6.0E-70
6 g3844.t13 PRINTS PR00472 Casein kinase II regulatory subunit family signature 81 102 6.0E-70
5 g3844.t13 PRINTS PR00472 Casein kinase II regulatory subunit family signature 106 127 6.0E-70
7 g3844.t13 PRINTS PR00472 Casein kinase II regulatory subunit family signature 128 149 6.0E-70
9 g3844.t13 PRINTS PR00472 Casein kinase II regulatory subunit family signature 156 173 6.0E-70
1 g3844.t13 Pfam PF01214 Casein kinase II regulatory subunit 8 187 9.0E-80
12 g3844.t13 ProSitePatterns PS01101 Casein kinase II regulatory subunit signature. 110 141 -
11 g3844.t13 SMART SM01085 CK_II_beta_2 8 187 1.6E-127
10 g3844.t13 SUPERFAMILY SSF57798 Casein kinase II beta subunit 6 187 1.57E-80

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:0019887 protein kinase regulator activity MF
GO:0005956 protein kinase CK2 complex CC

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