General information for g9676.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Calcium/calmodulin-dependent protein kinase type II alpha chain.
Parent gene
- The parent gene g9676 is located on chr_1: 4548493..4550596 (+ strand)
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 | g9676 | g9676.t1 | TSS | g9676.t1 | 4547492 | 4547492 |
| chr_1 | g9676 | g9676.t1 | isoform | g9676.t1 | 4548493 | 4550596 |
| chr_1 | g9676 | g9676.t1 | exon | g9676.t1.exon1 | 4548493 | 4548554 |
| chr_1 | g9676 | g9676.t1 | cds | g9676.t1.CDS1 | 4548493 | 4548554 |
| chr_1 | g9676 | g9676.t1 | exon | g9676.t1.exon2 | 4548610 | 4548819 |
| chr_1 | g9676 | g9676.t1 | cds | g9676.t1.CDS2 | 4548610 | 4548819 |
| chr_1 | g9676 | g9676.t1 | exon | g9676.t1.exon3 | 4548879 | 4549299 |
| chr_1 | g9676 | g9676.t1 | cds | g9676.t1.CDS3 | 4548879 | 4549299 |
| chr_1 | g9676 | g9676.t1 | exon | g9676.t1.exon4 | 4549367 | 4549480 |
| chr_1 | g9676 | g9676.t1 | cds | g9676.t1.CDS4 | 4549367 | 4549480 |
| chr_1 | g9676 | g9676.t1 | exon | g9676.t1.exon5 | 4549550 | 4549676 |
| chr_1 | g9676 | g9676.t1 | cds | g9676.t1.CDS5 | 4549550 | 4549676 |
| chr_1 | g9676 | g9676.t1 | exon | g9676.t1.exon6 | 4549826 | 4550009 |
| chr_1 | g9676 | g9676.t1 | cds | g9676.t1.CDS6 | 4549826 | 4550009 |
| chr_1 | g9676 | g9676.t1 | exon | g9676.t1.exon7 | 4550075 | 4550169 |
| chr_1 | g9676 | g9676.t1 | cds | g9676.t1.CDS7 | 4550075 | 4550169 |
| chr_1 | g9676 | g9676.t1 | exon | g9676.t1.exon8 | 4550294 | 4550408 |
| chr_1 | g9676 | g9676.t1 | cds | g9676.t1.CDS8 | 4550294 | 4550408 |
| chr_1 | g9676 | g9676.t1 | exon | g9676.t1.exon9 | 4550467 | 4550596 |
| chr_1 | g9676 | g9676.t1 | cds | g9676.t1.CDS9 | 4550467 | 4550596 |
| chr_1 | g9676 | g9676.t1 | TTS | g9676.t1 | NA | NA |
Sequences
>g9676.t1 Gene=g9676 Length=1458
ATGGCTATGCCAATTTGTACACGCTTCTCCGATAATTATGATATAAAGGAGGAGTTAGGA
AAAGGAGCATTTTCCATAGTTAAGCGATGTGTTCAGAAATCAACTGGACTTGAATTTGCT
GCAAAAATCATCAATACTAAAAAGTTAACAGCAAGAGATTTTCAAAAATTAGAACGTGAA
GCGCGTGTTTGTCGTAAATTGCAACATCCAAATATTGTGAGACTGCATGACAGCATAAAT
GAAGCAGATTATCATTATCTTATTTTTGATCTTGTAACTGGTGGTGAATTATTTGAGGAT
ATTGTGGCACGTGAATTTTATTCAGAAGCAGATGCGTCACATTGTATTCAACAGATACTT
GAGTCAGTTCATCACTGTCATCAAAATGGTATCGTGCATAGGGATTTGAAACCTGAAAAT
TTACTTCTAGCTAGTAAGATGAAGGGTGCTGCAGTAAAGTTGGCCGATTTTGGACTTGCC
ATTGAAGTACAGGGTGATCAACAAGCTTGGTTTGGTTTTGCAGGCACACCAGGCTACTTG
TCACCTGAAGTTTTAAAAAAAGAACCATATGGCAAACCAGTTGATATTTGGGCATGCGGT
GTCATTCTTTATATTCTTTTGGTCGGATATCCACCATTCTGGAATGAAGATCAACATAAA
TTATACGCACAAATCAAGGCTGGAACATATGATCCCGAGTGGGACACAGTCACATCTGAG
GCCAAGAATTTGATCAATCAAATGTTGACTGTGAATCCACATAAACGCATCACTTCAGCA
GAAGCACTCAAACATCCATGGATTTCACAACGTGAACGTGTAGCATCAGCCATTCATAGA
CAGGAGACTGTTGATTGTTTGAAGAAATTCAATGCAAGAAGAAAATTAAAGGGCGCTATT
CTAACGACAATGTTAGCAACGAGAAATTTTTCGAGTAAATCGGTTGTAGCAAAAGTTAAA
ACAGATGGATCGGATGAGAAAGTTGCAAAAGAATCATCCGATTCATCAAATAACAACGAC
GAATGCGATGACTCTGTTCGATTGAAGAGACAAGAAATTATTAAAGTAACAGAACAACTA
ATTGAGACTATCAATCGTGGTGATTTCATTGCATACACGAAAATTTGTGATCCACATTTG
ACTGCATTTGAACCAGAATCGATGGGAAATCTCGTTGAAGGAATGGATTTCCATAAATTT
TATTTTGAAAATGTTTTGGGAAAAAACTATCGTGCAATCAACACAACAATTCTCAATCCA
CATGTTCATTTACTTGGCGATGATACTGCATGCATTGCATATGTACGGTTGACTCAATAT
GTCGATAAACAAGGAATTGCTCACTCTCATCAATCGGAAGAGACACGCATATGGCATAAA
CGTGACAACAAATGGCAAAATGTTCATCTTCATCGAAGTGGTCCACGAACTCTCGAGTTT
GGTTTAGTCAACAAGTAA
>g9676.t1 Gene=g9676 Length=485
MAMPICTRFSDNYDIKEELGKGAFSIVKRCVQKSTGLEFAAKIINTKKLTARDFQKLERE
ARVCRKLQHPNIVRLHDSINEADYHYLIFDLVTGGELFEDIVAREFYSEADASHCIQQIL
ESVHHCHQNGIVHRDLKPENLLLASKMKGAAVKLADFGLAIEVQGDQQAWFGFAGTPGYL
SPEVLKKEPYGKPVDIWACGVILYILLVGYPPFWNEDQHKLYAQIKAGTYDPEWDTVTSE
AKNLINQMLTVNPHKRITSAEALKHPWISQRERVASAIHRQETVDCLKKFNARRKLKGAI
LTTMLATRNFSSKSVVAKVKTDGSDEKVAKESSDSSNNNDECDDSVRLKRQEIIKVTEQL
IETINRGDFIAYTKICDPHLTAFEPESMGNLVEGMDFHKFYFENVLGKNYRAINTTILNP
HVHLLGDDTACIAYVRLTQYVDKQGIAHSHQSEETRIWHKRDNKWQNVHLHRSGPRTLEF
GLVNK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g9676.t1 | CDD | cd14086 | STKc_CaMKII | 11 | 299 | 0.0 |
| 9 | g9676.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 1 | 93 | 7.0E-36 |
| 10 | g9676.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 94 | 313 | 3.5E-70 |
| 11 | g9676.t1 | Gene3D | G3DSA:3.10.450.50 | - | 335 | 479 | 1.1E-65 |
| 19 | g9676.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 321 | 342 | - |
| 4 | g9676.t1 | PANTHER | PTHR24347:SF403 | CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE TYPE II SUBUNIT BETA | 5 | 320 | 9.3E-254 |
| 6 | g9676.t1 | PANTHER | PTHR24347 | SERINE/THREONINE-PROTEIN KINASE | 5 | 320 | 9.3E-254 |
| 3 | g9676.t1 | PANTHER | PTHR24347:SF403 | CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE TYPE II SUBUNIT BETA | 323 | 453 | 9.3E-254 |
| 5 | g9676.t1 | PANTHER | PTHR24347 | SERINE/THREONINE-PROTEIN KINASE | 323 | 453 | 9.3E-254 |
| 2 | g9676.t1 | Pfam | PF00069 | Protein kinase domain | 13 | 268 | 2.2E-74 |
| 1 | g9676.t1 | Pfam | PF08332 | Calcium/calmodulin dependent protein kinase II association domain | 350 | 474 | 5.2E-59 |
| 12 | g9676.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 195 | - |
| 14 | g9676.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 196 | 214 | - |
| 13 | g9676.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 215 | 485 | - |
| 18 | g9676.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 19 | 42 | - |
| 17 | g9676.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 131 | 143 | - |
| 20 | g9676.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 13 | 268 | 51.311 |
| 16 | g9676.t1 | SMART | SM00220 | serkin_6 | 13 | 268 | 3.2E-106 |
| 8 | g9676.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 10 | 269 | 2.83E-88 |
| 7 | g9676.t1 | SUPERFAMILY | SSF54427 | NTF2-like | 350 | 473 | 1.56E-37 |
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:0004683 | calmodulin-dependent protein kinase activity | MF |
| GO:0004672 | protein kinase activity | MF |
| GO:0006468 | protein phosphorylation | BP |
| GO:0005516 | calmodulin binding | MF |
KEGG
Orthology
- This transcript has been annotated with K04515 (calcium/calmodulin-dependent protein kinase (CaM kinase) II)
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