General information for g11565.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Calcium/calmodulin-dependent protein kinase kinase 2.
Parent gene
- The parent gene g11565 is located on chr_1: 17164177..17166782 (- 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 | g11565 | g11565.t2 | isoform | g11565.t2 | 17164177 | 17166782 |
| chr_1 | g11565 | g11565.t2 | exon | g11565.t2.exon1 | 17164177 | 17164178 |
| chr_1 | g11565 | g11565.t2 | cds | g11565.t2.CDS1 | 17164177 | 17164178 |
| chr_1 | g11565 | g11565.t2 | exon | g11565.t2.exon2 | 17164264 | 17164392 |
| chr_1 | g11565 | g11565.t2 | cds | g11565.t2.CDS2 | 17164264 | 17164392 |
| chr_1 | g11565 | g11565.t2 | exon | g11565.t2.exon3 | 17164452 | 17164689 |
| chr_1 | g11565 | g11565.t2 | cds | g11565.t2.CDS3 | 17164452 | 17164689 |
| chr_1 | g11565 | g11565.t2 | exon | g11565.t2.exon4 | 17165204 | 17165562 |
| chr_1 | g11565 | g11565.t2 | cds | g11565.t2.CDS4 | 17165204 | 17165562 |
| chr_1 | g11565 | g11565.t2 | exon | g11565.t2.exon5 | 17165643 | 17165855 |
| chr_1 | g11565 | g11565.t2 | cds | g11565.t2.CDS5 | 17165643 | 17165709 |
| chr_1 | g11565 | g11565.t2 | exon | g11565.t2.exon6 | 17166504 | 17166782 |
| chr_1 | g11565 | g11565.t2 | TSS | g11565.t2 | NA | NA |
| chr_1 | g11565 | g11565.t2 | TTS | g11565.t2 | NA | NA |
Sequences
>g11565.t2 Gene=g11565 Length=1220
AGTTTTAAACATATTTTTGAATGAATGAGACACTAGTGTTCATTTCATCTTCAACCAAAT
CGAGCGGCTGTAGAAAAAAGTTAATTTAAATTTAAAAAAAAAATAAAATATTAAAATACA
CATTTCCTTATGAATTATTCTTTAACTTCCCTTTAACGACTTTTCACAGTTTCGAAACAC
TAAGAACAAGTACATGTATATTTTTTTAAAACTCCTTTTTAAAATTAAGTAGTGCTATTT
TAAATTAGTGTACCTTAAGAATGCAGTTTTAAAACATTTATTCAAATTCATCCGAAACCT
CATTACTTACTTAATAACTTACATTTTAATTACAAGAAACAAAAACAAACACATAAAGCC
AATTTTTTTCTAATTATGCTATTGATGTAATAGTGTTGTTGTAGTGAAGCTAAGGGAAGG
AAAATATGGACGATAATAGTAAATTGTCAAATGAGTTTGTGCTAGCAAGTGATACAGTCT
CGAGTAAAGACGATGTTACACATCCTTATAATCGCTTGAAAACCATGTATTGTAAATTCA
TGCCAAAAAAGACCCAGTCATTAGATATCGATGAGTCCACTATTGCCAATAATTTTCCCA
CTCAAAATTGCTTTGAGTCAATTAATGAAGAGAAAATAATGACAGATTCATTAGGCGAGA
CTTCTGATCGTCAAAAGAAGACTGTCACCGGATGTCAAACACGACCAATTTTTCCCAACT
TGAGCTATAGTCCGTTATCGAGTCCGCGAATAACAAGAAAACCAGCTAAGGAATCGAGAC
ACATCTCAATTGACAAAAATGGAAGTTTTATGCAACTTAATCAATATAGGTTAATGGAGC
AAATTGGAGTTGGCTCATATGGTTATGTGAAAATGGCATATAATGAAGAAGAAGATCAGC
ATTATGCAATGAAAATATTATCAAAAAAGAAGCTGATACGAAAAGCAGGAATTGGACTTA
ATCGAGGGCATCCAAAAAGAGGGAATAATATTGCAACTCAAACTACTCCACTCGATAGAG
TTTATAGGGAAATTGCTGTATTAAAGAAACTTGACCATCCAAATGTTGTTAGGCTGATTG
AAGTTTTAGATGATCCAATTGAAGATGCATTATATATGGTTTTTGAGCTTATAAGTTATG
GTGAAGTTCTTAAAATTCCTACAAACACTCCACTCTCAGAGGAACGTGCATGGTTAATAT
TTCGTCAAGTTATTTTAGGT
>g11565.t2 Gene=g11565 Length=265
MDDNSKLSNEFVLASDTVSSKDDVTHPYNRLKTMYCKFMPKKTQSLDIDESTIANNFPTQ
NCFESINEEKIMTDSLGETSDRQKKTVTGCQTRPIFPNLSYSPLSSPRITRKPAKESRHI
SIDKNGSFMQLNQYRLMEQIGVGSYGYVKMAYNEEEDQHYAMKILSKKKLIRKAGIGLNR
GHPKRGNNIATQTTPLDRVYREIAVLKKLDHPNVVRLIEVLDDPIEDALYMVFELISYGE
VLKIPTNTPLSEERAWLIFRQVILG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11565.t2 | Gene3D | G3DSA:3.30.200.20 | Phosphorylase Kinase; domain 1 | 121 | 235 | 8.1E-30 |
| 2 | g11565.t2 | PANTHER | PTHR43895:SF39 | CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE KINASE 2 | 75 | 265 | 4.1E-54 |
| 3 | g11565.t2 | PANTHER | PTHR43895 | - | 75 | 265 | 4.1E-54 |
| 1 | g11565.t2 | Pfam | PF00069 | Protein kinase domain | 134 | 265 | 8.6E-16 |
| 6 | g11565.t2 | ProSitePatterns | PS00107 | Protein kinases ATP-binding region signature. | 140 | 173 | - |
| 8 | g11565.t2 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 134 | 265 | 18.308 |
| 5 | g11565.t2 | SMART | SM00220 | serkin_6 | 134 | 265 | 3.0E-4 |
| 4 | g11565.t2 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 128 | 265 | 4.63E-24 |
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.
