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.t4 isoform g3844.t4 28338758 28340100
chr_3 g3844 g3844.t4 exon g3844.t4.exon1 28338758 28339287
chr_3 g3844 g3844.t4 exon g3844.t4.exon2 28339365 28339461
chr_3 g3844 g3844.t4 cds g3844.t4.CDS1 28339377 28339461
chr_3 g3844 g3844.t4 exon g3844.t4.exon3 28339535 28340100
chr_3 g3844 g3844.t4 cds g3844.t4.CDS2 28339535 28340094
chr_3 g3844 g3844.t4 TSS g3844.t4 28340516 28340516
chr_3 g3844 g3844.t4 TTS g3844.t4 NA NA

Sequences

>g3844.t4 Gene=g3844 Length=1193
AGAAAAATGAGTAGCTCTGAAGAAGTTTCTTGGATTTCATGGTTCTGCGGTTTGCGAGGA
AACGAATTTTTCTGTGAAGTTGATGAAGATTACATTCAGGATAAGTTTAATTTGACAGGA
CTAAATGAGCAAGTGCCCAACTATAGACAAGCGCTTGATATGATTCTTGATCTTGAGCCA
GATGAGGATGAAATTGATGTTAATCCAAATCAATCAGATCTAATTGAGCAAGCTGCTGAG
ATGCTATATGGGCTTATTCATGCACGCTACATTTTAACAAATCGCGGAATCGCGCAAATG
ATTGAAAAATACCAGAGCGGCGACTTTGGTCATTGTCCACGCGTGTATTGTGAAAGTCAG
CCAATGTTACCGTTAGGTCTTAGCGATGTTCCTGGCGAAGCTATGGTTAAATCTTATTGC
CCGAAATGCATAGACGTTTACACTCCAAAATCATCTCGCCACCATCATACTGATGGTGCC
TATTTCGGCACTGGCTTTCCTCATATGTTGTTTATGGTTCATCCTGAATATCGACCAAAG
CGACCTGCCAACCAATTTGTCCCAAGGTTGTATGGATTTAAAATTCACAATTTGGCTTAT
CAAATACAATTACAAGCTGCTGCGCAATTTAAACAGCCTAGAACAAACTAGCAATCTGAG
AAGCGACTAATTAATAACAGTACTGAAGTTAGGCTTGTTTGAACATCAACCAAATAAATG
AGAAATGGATAGAAGAATTTAATTAATTAAAATAGTTCTTCACTGATTGACATCATATTT
AGTCGTATTTCCATAATTTGTTAAAAGAGAAAAAATCAAAAAAGAAGAAGAAACAAGCCA
TTCACATAAACACACACACACACAGACATCTTTTTTTCTCCATAAGTTTTGTCTATGTCA
ACATTATTTGAAATAATAAATATCCTATTATTTAAAATGCTGTAATCCTCCTTTTCACAT
CCAATCTACAGTCATTGTTTTCCTTCTATTTCCTCATTCACTTTTACTTGTGAAAATGGA
TATAATATGAAAATGACTTTAAAGTAATAAAAATTGATATAATTATGATAATTGATTAAA
GCATAAAAGAGTTATGATAATAATTATAAACTTGAGTATTTTTATTCTAATTTATTTTTT
GTTGTTGATTTTTACACAAAAGTATAGTAGTTAGTTGATGTTGATTTTAATTC

>g3844.t4 Gene=g3844 Length=214
MSSSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPNYRQALDMILDLEPDE
DEIDVNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMIEKYQSGDFGHCPRVYCESQPM
LPLGLSDVPGEAMVKSYCPKCIDVYTPKSSRHHHTDGAYFGTGFPHMLFMVHPEYRPKRP
ANQFVPRLYGFKIHNLAYQIQLQAAAQFKQPRTN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g3844.t4 Gene3D G3DSA:1.10.1820.10 protein kinase ck2 holoenzyme 1 106 4.2E-48
14 g3844.t4 Gene3D G3DSA:2.20.25.20 - 107 181 4.2E-38
2 g3844.t4 PANTHER PTHR11740:SF0 CASEIN KINASE II SUBUNIT BETA 1 206 4.1E-102
3 g3844.t4 PANTHER PTHR11740 CASEIN KINASE II SUBUNIT BETA 1 206 4.1E-102
8 g3844.t4 PRINTS PR00472 Casein kinase II regulatory subunit family signature 8 24 1.1E-69
4 g3844.t4 PRINTS PR00472 Casein kinase II regulatory subunit family signature 25 39 1.1E-69
6 g3844.t4 PRINTS PR00472 Casein kinase II regulatory subunit family signature 81 102 1.1E-69
5 g3844.t4 PRINTS PR00472 Casein kinase II regulatory subunit family signature 106 127 1.1E-69
7 g3844.t4 PRINTS PR00472 Casein kinase II regulatory subunit family signature 128 149 1.1E-69
9 g3844.t4 PRINTS PR00472 Casein kinase II regulatory subunit family signature 156 173 1.1E-69
1 g3844.t4 Pfam PF01214 Casein kinase II regulatory subunit 8 192 1.8E-83
12 g3844.t4 ProSitePatterns PS01101 Casein kinase II regulatory subunit signature. 110 141 -
11 g3844.t4 SMART SM01085 CK_II_beta_2 8 192 5.6E-137
10 g3844.t4 SUPERFAMILY SSF57798 Casein kinase II beta subunit 6 202 1.16E-86

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