Gene loci information

Transcript annotation

  • This transcript has been annotated as Calcium/calmodulin-dependent protein kinase type 1.

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_1 g11421 g11421.t4 isoform g11421.t4 16134219 16137749
chr_1 g11421 g11421.t4 exon g11421.t4.exon1 16134219 16135042
chr_1 g11421 g11421.t4 TSS g11421.t4 16134225 16134225
chr_1 g11421 g11421.t4 cds g11421.t4.CDS1 16134924 16135042
chr_1 g11421 g11421.t4 exon g11421.t4.exon2 16135656 16135790
chr_1 g11421 g11421.t4 cds g11421.t4.CDS2 16135656 16135790
chr_1 g11421 g11421.t4 exon g11421.t4.exon3 16136553 16136609
chr_1 g11421 g11421.t4 cds g11421.t4.CDS3 16136553 16136609
chr_1 g11421 g11421.t4 exon g11421.t4.exon4 16137087 16137161
chr_1 g11421 g11421.t4 cds g11421.t4.CDS4 16137087 16137161
chr_1 g11421 g11421.t4 exon g11421.t4.exon5 16137611 16137749
chr_1 g11421 g11421.t4 cds g11421.t4.CDS5 16137611 16137749
chr_1 g11421 g11421.t4 TTS g11421.t4 NA NA

Sequences

>g11421.t4 Gene=g11421 Length=1230
ACACAGCGCTTAGAAAAAAATTAATGTGTTTTGCAATACATTCGAAACTTTAAAAATTTT
ATTGTATTATTTGGTACTTTGGTACATGTAAAATAAAAAGTTTAAAAAGTATGCTAAATA
ATTTCGCGAGTCAAATCTGTTAGGAGATTTTGTCGTAGGAACATAATTAGGATATTATTG
ATTTAAATATTAATCGTCGTTGACAATTTTAAAAAAGTTAATTGTAATAATTTTACTACA
AAGTCCTTCTCCGCTGTTTTATTTTAATAATTTTAAAATCCGTGTGTTAGTTGAAAAAGG
AACTCGTTTTATTAATGAATCTTGCTAATTGTGATGATAAATATTTAGAAAACACTAGAA
ATCAAGTGAAAATTGTAAAAAATCGAAATAAATCATTAAATACATAATTAGTGTATTTTT
AATATAAAAGCAAGAAAAAATAATTTTTGCAAAAAAATCGAGACGGAAAAAAAGAGATTG
AAGGATCTGCTCGTCCATAGATCATATTAGGACTTTAAAACTTAGAGAAAAGTATAAATA
AAGCAATTTTTCAGAGTGTCTCTTACATTATTCATTACAATTTTTTTAAATTTACCTAGA
TAAAAACGCAAATAAAGTGAAAAGTGTTTTTTATAATTTTTTTAATCATTAAAAAATTAT
CAATTTTTATATCGTTGATTTGAAACTAACAAAAAAAATATAATAATGCCCCTGTTTGGT
AAAAAAGACTCTAAAAAGAATTCGAGGAAGGATATCAACAAGGATATTGACAAACAAATA
GCTAATATTGAAGATAAATACCATTTAAGACAAGTTTTAGGAAATGGTGCCTTTTCGGAA
GTTCGACTTGGTGAAAGCAAAGAAAACCCGGGTCAATTATTTGCCATCAAAATTATTGAT
AAAAAAGCACTTAAAGGAAAGGAGGACTCACTGGAAAATGAAATTAAAGTACTTAGAAGG
TTCTCCGCAATGAATGCAAATGATAATGATAATGATAATAATATTGAAACTAAGCGGTTA
ACTCATCCGAACATAGTGCAACTGCTAGAAACATACGAGGATAAGACAAAAGTTTATTTA
GTTATGGAACTGGTAACTGGTGGTGAACTTTTCGATAGAATTGTAGAAAAAGGTTCATAT
ACAGAGAAAGATGCATCAGGTCTCATTCGACAAGTGCTTGAAGCTGTCGATTATATGCAT
GAACAGGGAGTCGTTCATCGAGATCTAAAA

>g11421.t4 Gene=g11421 Length=175
MPLFGKKDSKKNSRKDINKDIDKQIANIEDKYHLRQVLGNGAFSEVRLGESKENPGQLFA
IKIIDKKALKGKEDSLENEIKVLRRFSAMNANDNDNDNNIETKRLTHPNIVQLLETYEDK
TKVYLVMELVTGGELFDRIVEKGSYTEKDASGLIRQVLEAVDYMHEQGVVHRDLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g11421.t4 Gene3D G3DSA:3.30.200.20 Phosphorylase Kinase; domain 1 14 129 3.9E-31
10 g11421.t4 Gene3D G3DSA:1.10.510.10 Transferase(Phosphotransferase) domain 1 130 175 5.7E-13
3 g11421.t4 PANTHER PTHR24347 SERINE/THREONINE-PROTEIN KINASE 22 90 1.4E-45
5 g11421.t4 PANTHER PTHR24347:SF113 CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE TYPE 1B 22 90 1.4E-45
2 g11421.t4 PANTHER PTHR24347 SERINE/THREONINE-PROTEIN KINASE 102 175 1.4E-45
4 g11421.t4 PANTHER PTHR24347:SF113 CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE TYPE 1B 102 175 1.4E-45
1 g11421.t4 Pfam PF00069 Protein kinase domain 103 175 5.1E-23
8 g11421.t4 ProSitePatterns PS00107 Protein kinases ATP-binding region signature. 38 62 -
11 g11421.t4 ProSiteProfiles PS50011 Protein kinase domain profile. 32 175 27.269
7 g11421.t4 SMART SM00220 serkin_6 32 175 1.3E-8
6 g11421.t4 SUPERFAMILY SSF56112 Protein kinase-like (PK-like) 18 175 2.19E-36

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:0004672 protein kinase activity MF
GO:0006468 protein phosphorylation BP

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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