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.t8 TTS g3844.t8 28338845 28338845
chr_3 g3844 g3844.t8 isoform g3844.t8 28338992 28340731
chr_3 g3844 g3844.t8 exon g3844.t8.exon1 28338992 28339287
chr_3 g3844 g3844.t8 exon g3844.t8.exon2 28339365 28339461
chr_3 g3844 g3844.t8 cds g3844.t8.CDS1 28339377 28339461
chr_3 g3844 g3844.t8 exon g3844.t8.exon3 28339535 28340098
chr_3 g3844 g3844.t8 cds g3844.t8.CDS2 28339535 28340098
chr_3 g3844 g3844.t8 exon g3844.t8.exon4 28340400 28340429
chr_3 g3844 g3844.t8 cds g3844.t8.CDS3 28340400 28340429
chr_3 g3844 g3844.t8 exon g3844.t8.exon5 28340685 28340731
chr_3 g3844 g3844.t8 cds g3844.t8.CDS4 28340685 28340731
chr_3 g3844 g3844.t8 TSS g3844.t8 NA NA

Sequences

>g3844.t8 Gene=g3844 Length=1034
ATGATGAATAGCTGTATCGATAGGCGCTGCGACTGCTACAAAATAAGTGTGGATAAACCA
GTTGGTGGCATTAAAAGAAAAATGAGTAGCTCTGAAGAAGTTTCTTGGATTTCATGGTTC
TGCGGTTTGCGAGGAAACGAATTTTTCTGTGAAGTTGATGAAGATTACATTCAGGATAAG
TTTAATTTGACAGGACTAAATGAGCAAGTGCCCAACTATAGACAAGCGCTTGATATGATT
CTTGATCTTGAGCCAGATGAGGATGAAATTGATGTTAATCCAAATCAATCAGATCTAATT
GAGCAAGCTGCTGAGATGCTATATGGGCTTATTCATGCACGCTACATTTTAACAAATCGC
GGAATCGCGCAAATGATTGAAAAATACCAGAGCGGCGACTTTGGTCATTGTCCACGCGTG
TATTGTGAAAGTCAGCCAATGTTACCGTTAGGTCTTAGCGATGTTCCTGGCGAAGCTATG
GTTAAATCTTATTGCCCGAAATGCATAGACGTTTACACTCCAAAATCATCTCGCCACCAT
CATACTGATGGTGCCTATTTCGGCACTGGCTTTCCTCATATGTTGTTTATGGTTCATCCT
GAATATCGACCAAAGCGACCTGCCAACCAATTTGTCCCAAGGTTGTATGGATTTAAAATT
CACAATTTGGCTTATCAAATACAATTACAAGCTGCTGCGCAATTTAAACAGCCTAGAACA
AACTAGCAATCTGAGAAGCGACTAATTAATAACAGTACTGAAGTTAGGCTTGTTTGAACA
TCAACCAAATAAATGAGAAATGGATAGAAGAATTTAATTAATTAAAATAGTTCTTCACTG
ATTGACATCATATTTAGTCGTATTTCCATAATTTGTTAAAAGAGAAAAAATCAAAAAAGA
AGAAGAAACAAGCCATTCACATAAACACACACACACACAGACATCTTTTTTTCTCCATAA
GTTTTGTCTATGTCAACATTATTTGAAATAATAAATATCCTATTATTTAAAATGCTGTAA
TCCTCCTTTTCACA

>g3844.t8 Gene=g3844 Length=241
MMNSCIDRRCDCYKISVDKPVGGIKRKMSSSEEVSWISWFCGLRGNEFFCEVDEDYIQDK
FNLTGLNEQVPNYRQALDMILDLEPDEDEIDVNPNQSDLIEQAAEMLYGLIHARYILTNR
GIAQMIEKYQSGDFGHCPRVYCESQPMLPLGLSDVPGEAMVKSYCPKCIDVYTPKSSRHH
HTDGAYFGTGFPHMLFMVHPEYRPKRPANQFVPRLYGFKIHNLAYQIQLQAAAQFKQPRT
N

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g3844.t8 Gene3D G3DSA:1.10.1820.10 protein kinase ck2 holoenzyme 28 133 5.6E-48
14 g3844.t8 Gene3D G3DSA:2.20.25.20 - 134 208 5.3E-38
2 g3844.t8 PANTHER PTHR11740:SF0 CASEIN KINASE II SUBUNIT BETA 26 233 9.2E-103
3 g3844.t8 PANTHER PTHR11740 CASEIN KINASE II SUBUNIT BETA 26 233 9.2E-103
9 g3844.t8 PRINTS PR00472 Casein kinase II regulatory subunit family signature 35 51 1.9E-69
5 g3844.t8 PRINTS PR00472 Casein kinase II regulatory subunit family signature 52 66 1.9E-69
8 g3844.t8 PRINTS PR00472 Casein kinase II regulatory subunit family signature 108 129 1.9E-69
4 g3844.t8 PRINTS PR00472 Casein kinase II regulatory subunit family signature 133 154 1.9E-69
7 g3844.t8 PRINTS PR00472 Casein kinase II regulatory subunit family signature 155 176 1.9E-69
6 g3844.t8 PRINTS PR00472 Casein kinase II regulatory subunit family signature 183 200 1.9E-69
1 g3844.t8 Pfam PF01214 Casein kinase II regulatory subunit 35 219 2.7E-83
12 g3844.t8 ProSitePatterns PS01101 Casein kinase II regulatory subunit signature. 137 168 -
11 g3844.t8 SMART SM01085 CK_II_beta_2 35 219 5.6E-137
10 g3844.t8 SUPERFAMILY SSF57798 Casein kinase II beta subunit 33 229 1.83E-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