General information for g2644.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 g2644 is located on chr_3: 19296145..19303965 (- 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_3 | g2644 | g2644.t1 | isoform | g2644.t1 | 19283710 | 19300746 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon1 | 19283710 | 19284158 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS1 | 19283710 | 19284158 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon2 | 19285064 | 19285120 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS2 | 19285064 | 19285120 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon3 | 19291402 | 19291497 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS3 | 19291402 | 19291497 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon4 | 19291738 | 19291780 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS4 | 19291738 | 19291780 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon5 | 19291842 | 19291925 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS5 | 19291842 | 19291925 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon6 | 19293420 | 19293542 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS6 | 19293420 | 19293542 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon7 | 19293732 | 19293965 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS7 | 19293732 | 19293965 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon8 | 19294028 | 19294214 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS8 | 19294028 | 19294214 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon9 | 19296283 | 19296337 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS9 | 19296283 | 19296337 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon10 | 19299660 | 19299719 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS10 | 19299660 | 19299719 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon11 | 19299780 | 19299874 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS11 | 19299780 | 19299874 |
| chr_3 | g2644 | g2644.t1 | exon | g2644.t1.exon12 | 19300688 | 19300746 |
| chr_3 | g2644 | g2644.t1 | cds | g2644.t1.CDS12 | 19300688 | 19300746 |
| chr_3 | g2644 | g2644.t1 | TSS | g2644.t1 | NA | NA |
| chr_3 | g2644 | g2644.t1 | TTS | g2644.t1 | NA | NA |
Sequences
>g2644.t1 Gene=g2644 Length=1542
ATGGCTACGACTAGTACGCGATTTACAGATAATTATGAGATAAAAGAAGAATTAGGAAAG
GGTGCATTTTCAATAGTAAAACGATGTGTTCAAAAATCCACAGGACTCGAATTTGCAGCA
AAAATTATCAATACAAAAAAATTGACTTCTAGAGATTTCCAAAAACTCGAACGTGAAGCG
AGAATCTGTCGGAAATTGCAGCATCCAAATATAGTGAGACTCCATGACTCTATTTCAGAA
GAGAATTATCACTATCTAATATTCGATCTTGTTACGGGAGGCGAATTGTTTGAAGATATC
GTTGCACGTGAATTTTATTCAGAAGCAGACGCTTCTCATTGTATTCAACAAATTCTCGAG
TCCGTTAATCACTGCCATCAAAATGGCGTTGTACACAGGGACTTGAAACCAGAAAATTTG
CTACTAGCTAGTAAAGCAAAAGGTGCTGCTGTAAAGTTGGCGGATTTTGGTCTTGCCATT
GAAGTGCAGGGTGATCAACAAGCATGGTTTGGGTTTGCTGGGACACCGGGCTACCTTTCG
CCAGAAGTATTAAAGAAAGAACCATATGGAAAAGCAGTTGACATTTGGGCATGTGGTGTC
ATTTTATATATTCTTCTCGTCGGTTATCCGCCATTTTGGGATGAAGATCAACATCGTTTA
TATGCACAAATTAAGGCTGGTACATATGATTATCCATCACCAGAATGGGACACTGTTACA
ACAGAAGCTAAGAACTTGATCAATCAAATGTTAACTGTAAATCCATACAAAAGAATTACA
GCTGCCGAAGCTCTTAAACATCCATGGATTTGTCAACGTGAGCGTGTTGCATCAGTTGTA
CATAGACAAGAGACTGTCGATTGCTTGAAGAAATTCAATGCAAGGCGTAAGCTAAAGGGT
GCCATTCTAACGACAATGTTGGCAACTAGAAATTTTTCAAGTAAAAGCATAATAACAAAA
AAGAGTGATGGATCGGGAGCAAAAGAGAAGGAGTCAACAGATTCGAGCACTACTTTGGAA
GATGAAGACGTTAAGGATGATAAAAAAGGAGGCGTGGATCGCAGCTCAACGGTCATAGCT
AAAGATCCAGAAGACAGACCGACAACTTCAGCGACAGCTGGCTTAATTGGAAGTTCTTTA
CAAGCAATTGCAGCAACTGGATTTGGACCAGCGGTAGAAAATCTTATTAATGTCAATCAA
AATCAAGACCATACAAGACGAGCTTCAACACCTGGTGCATCGACGACAGCAAATGCAAAT
CCAAGTGGTGGTGGTGGTTTTAGTAGCATCTTCAATTTAAAATCTGTAATAAATGCGGCT
ACAAAATCCTCACATCAACCATCATCACAACAACAACAAACACCTTCAATTCCAGTGTCA
AATTCAAATTTCTATGTACCACCACCACCACTACCTGTTGATCAACAGACATTAATCGAT
ACCCATAACAATTCAAATTCAACTATGATACAAAAATCCGTCCAAGGTACAACTCTACGC
TTTCTCCTTCAAAATGCTTTTGAGTGTTCGCATCTGTATTAA
>g2644.t1 Gene=g2644 Length=513
MATTSTRFTDNYEIKEELGKGAFSIVKRCVQKSTGLEFAAKIINTKKLTSRDFQKLEREA
RICRKLQHPNIVRLHDSISEENYHYLIFDLVTGGELFEDIVAREFYSEADASHCIQQILE
SVNHCHQNGVVHRDLKPENLLLASKAKGAAVKLADFGLAIEVQGDQQAWFGFAGTPGYLS
PEVLKKEPYGKAVDIWACGVILYILLVGYPPFWDEDQHRLYAQIKAGTYDYPSPEWDTVT
TEAKNLINQMLTVNPYKRITAAEALKHPWICQRERVASVVHRQETVDCLKKFNARRKLKG
AILTTMLATRNFSSKSIITKKSDGSGAKEKESTDSSTTLEDEDVKDDKKGGVDRSSTVIA
KDPEDRPTTSATAGLIGSSLQAIAATGFGPAVENLINVNQNQDHTRRASTPGASTTANAN
PSGGGGFSSIFNLKSVINAATKSSHQPSSQQQQTPSIPVSNSNFYVPPPPLPVDQQTLID
THNNSNSTMIQKSVQGTTLRFLLQNAFECSHLY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g2644.t1 | CDD | cd14086 | STKc_CaMKII | 10 | 301 | 0.0 |
| 5 | g2644.t1 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 1 | 92 | 9.4E-37 |
| 6 | g2644.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 93 | 315 | 1.2E-72 |
| 16 | g2644.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 320 | 370 | - |
| 14 | g2644.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 322 | 361 | - |
| 15 | g2644.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 402 | 422 | - |
| 2 | g2644.t1 | PANTHER | PTHR24347:SF403 | CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE TYPE II SUBUNIT BETA | 2 | 359 | 4.8E-213 |
| 3 | g2644.t1 | PANTHER | PTHR24347 | SERINE/THREONINE-PROTEIN KINASE | 2 | 359 | 4.8E-213 |
| 1 | g2644.t1 | Pfam | PF00069 | Protein kinase domain | 12 | 270 | 1.9E-76 |
| 7 | g2644.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 194 | - |
| 9 | g2644.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 195 | 213 | - |
| 8 | g2644.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 214 | 513 | - |
| 13 | g2644.t1 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 18 | 41 | - |
| 12 | g2644.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 130 | 142 | - |
| 17 | g2644.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 12 | 270 | 51.778 |
| 11 | g2644.t1 | SMART | SM00220 | serkin_6 | 12 | 270 | 1.3E-107 |
| 4 | g2644.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 8 | 461 | 2.56E-91 |
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 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.
