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.t11 TTS g3844.t11 28338845 28338845
chr_3 g3844 g3844.t11 isoform g3844.t11 28339377 28340731
chr_3 g3844 g3844.t11 exon g3844.t11.exon1 28339377 28339475
chr_3 g3844 g3844.t11 cds g3844.t11.CDS1 28339462 28339475
chr_3 g3844 g3844.t11 exon g3844.t11.exon2 28339557 28340731
chr_3 g3844 g3844.t11 cds g3844.t11.CDS2 28339557 28340094
chr_3 g3844 g3844.t11 TSS g3844.t11 NA NA

Sequences

>g3844.t11 Gene=g3844 Length=1274
ATGATGAATAGCTGTATCGATAGGCGCTGCGACTGCTACAAAATAAGGTATTCTAGTTAA
TTTAATTAAACACCTAAAAGGCATTCTTATTTTTGGGCAATTTATATATAAATTTATATA
AGAGAGAAATGTTAAGAAAACTGTAGAACAGGGGGTGAACAAGTGTAAATGTGTAAGATA
CTACATTCGAAGAAATAAAAGTTTCTTGCATTTCTTCATTTAGTCACAAGCCCGTCAAAA
AATAATTAAAGGAAGCATTTTTTCGTTTATCAGAAACTATAATTTACTTTATCTATTCCA
AGTGTGGATAAACCAGTTGGTGGCATTAAAAGGTAAGCAGCTAATTGACATAAAAAATTC
AGATTGTATTGTGTCTACGTTTTACACTCAGAAATATTCTAAAAAGACAAAAAATTATTT
CAAAATCGACTCTTTGATTTTACAAAAAATTCTAATAATTTGACTATTTTTCTGAATTTA
CCAATGAAAAAACTTTGAATTACATATAGTTATAGCTATTTTATAATAAACTTTTGCTGT
AAAATATCAAACATGAGTATTGCATTCGCCATATTATATTTTTCTATCAATCTATCAATG
TTCTCAAAAATCACTTTCTTTTATTCCACACAGAAAAATGAGTAGCTCTGAAGAAGTTTC
TTGGATTTCATGGTTCTGCGGTTTGCGAGGAAACGAATTTTTCTGTGAAGTTGATGAAGA
TTACATTCAGGATAAGTTTAATTTGACAGGACTAAATGAGCAAGTGCCCAACTATAGACA
AGCGCTTGATATGATTCTTGATCTTGAGCCAGATGAGGATGAAATTGATGTTAATCCAAA
TCAATCAGATCTAATTGAGCAAGCTGCTGAGATGCTATATGGGCTTATTCATGCACGCTA
CATTTTAACAAATCGCGGAATCGCGCAAATGATTGAAAAATACCAGAGCGGCGACTTTGG
TCATTGTCCACGCGTGTATTGTGAAAGTCAGCCAATGTTACCGTTAGGTCTTAGCGATGT
TCCTGGCGAAGCTATGGTTAAATCTTATTGCCCGAAATGCATAGACGTTTACACTCCAAA
ATCATCTCGCCACCATCATACTGATGGTGCCTATTTCGGCACTGGCTTTCCTCATATGTT
GTTTATGGTTCATCCTGAATATCGACCAAAGCGACATTTGATTACCTAGGTTGTATGGAT
TTAAAATTCACAATTTGGCTTATCAAATACAATTACAAGCTGCTGCGCAATTTAAACAGC
CTAGAACAAACTAG

>g3844.t11 Gene=g3844 Length=183
MSSSEEVSWISWFCGLRGNEFFCEVDEDYIQDKFNLTGLNEQVPNYRQALDMILDLEPDE
DEIDVNPNQSDLIEQAAEMLYGLIHARYILTNRGIAQMIEKYQSGDFGHCPRVYCESQPM
LPLGLSDVPGEAMVKSYCPKCIDVYTPKSSRHHHTDGAYFGTGFPHMLFMVHPEYRPKRH
LIT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g3844.t11 Gene3D G3DSA:1.10.1820.10 protein kinase ck2 holoenzyme 1 106 2.7E-48
14 g3844.t11 Gene3D G3DSA:2.20.25.20 - 107 180 2.2E-37
2 g3844.t11 PANTHER PTHR11740:SF0 CASEIN KINASE II SUBUNIT BETA 1 179 3.1E-93
3 g3844.t11 PANTHER PTHR11740 CASEIN KINASE II SUBUNIT BETA 1 179 3.1E-93
8 g3844.t11 PRINTS PR00472 Casein kinase II regulatory subunit family signature 8 24 5.6E-70
4 g3844.t11 PRINTS PR00472 Casein kinase II regulatory subunit family signature 25 39 5.6E-70
6 g3844.t11 PRINTS PR00472 Casein kinase II regulatory subunit family signature 81 102 5.6E-70
5 g3844.t11 PRINTS PR00472 Casein kinase II regulatory subunit family signature 106 127 5.6E-70
7 g3844.t11 PRINTS PR00472 Casein kinase II regulatory subunit family signature 128 149 5.6E-70
9 g3844.t11 PRINTS PR00472 Casein kinase II regulatory subunit family signature 156 173 5.6E-70
1 g3844.t11 Pfam PF01214 Casein kinase II regulatory subunit 8 179 6.8E-78
12 g3844.t11 ProSitePatterns PS01101 Casein kinase II regulatory subunit signature. 110 141 -
11 g3844.t11 SMART SM01085 CK_II_beta_2 8 179 1.2E-122
10 g3844.t11 SUPERFAMILY SSF57798 Casein kinase II beta subunit 6 180 8.11E-79

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. There were no conditions that were differentially expressed