General information for g12844.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine/threonine-protein kinase Chk2.
Parent gene
- The parent gene g12844 is located on chr_1: 26506262..26507039 (- 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 | g12844 | g12844.t1 | isoform | g12844.t1 | 26506262 | 26507039 |
| chr_1 | g12844 | g12844.t1 | exon | g12844.t1.exon1 | 26506262 | 26506509 |
| chr_1 | g12844 | g12844.t1 | cds | g12844.t1.CDS1 | 26506262 | 26506509 |
| chr_1 | g12844 | g12844.t1 | exon | g12844.t1.exon2 | 26506570 | 26506738 |
| chr_1 | g12844 | g12844.t1 | cds | g12844.t1.CDS2 | 26506570 | 26506738 |
| chr_1 | g12844 | g12844.t1 | exon | g12844.t1.exon3 | 26506806 | 26507039 |
| chr_1 | g12844 | g12844.t1 | cds | g12844.t1.CDS3 | 26506806 | 26507039 |
| chr_1 | g12844 | g12844.t1 | TSS | g12844.t1 | NA | NA |
| chr_1 | g12844 | g12844.t1 | TTS | g12844.t1 | NA | NA |
Sequences
>g12844.t1 Gene=g12844 Length=651
ATGCCAGAAGAAATGAAGTCTAAAGCAGTGGCTTTAAAAACTATAGTTTACAACACATCA
ACTGTCTATAACAGTACAGCTCTTGACACTGTTAATAAAAACGAGGTTGATATTATGAAG
AAACTATTCTATCGACACGTTATGAGCTTGTTAAATCATTTCACTGCAAATGACAAGTAT
CTATATCTGCTTTTTTTTTTTGGTTTAATGGATGGTGGAGATTTATTGAAACGCATTGTT
GATTCTCCAGATAGACGTCTTTCAGAAACGGACTCGAAATTTTTCTTTTTACAATTAGTT
CAAGGCGTAAATTATTTGCACAGCAATCACGTCGCTCATCGAGATATCAAAGCAGAAAAT
TGTTTTCTTTCTAATCGTGGCATTTCACCTTTATTAAGAATCGGCAATTTTGGTTTGAGT
AGTAAGATCTCTGACGCGATGAGTACTATTTGTGGTACTATCTTATATACTGCGCCCGAA
GTTTTCGAGTCATCTTTGTATTCACAAAAAGTTGATATATGGAGTTTAGGTTGCTTGCTT
TATGCAATGCTTTCAGGAAAAGTCCCGTTCGCAGCAGATCAAGGAAGTGGAAACGAAAAA
TTGCTCGAAGAAAAAATTAAAAAAAGCCGAATACACTTTGAAAGGATTTAA
>g12844.t1 Gene=g12844 Length=216
MPEEMKSKAVALKTIVYNTSTVYNSTALDTVNKNEVDIMKKLFYRHVMSLLNHFTANDKY
LYLLFFFGLMDGGDLLKRIVDSPDRRLSETDSKFFFLQLVQGVNYLHSNHVAHRDIKAEN
CFLSNRGISPLLRIGNFGLSSKISDAMSTICGTILYTAPEVFESSLYSQKVDIWSLGCLL
YAMLSGKVPFAADQGSGNEKLLEEKIKKSRIHFERI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12844.t1 | Gene3D | G3DSA:1.10.510.10 | Transferase(Phosphotransferase) domain 1 | 3 | 216 | 8.1E-52 |
| 2 | g12844.t1 | PANTHER | PTHR44167 | OVARIAN-SPECIFIC SERINE/THREONINE-PROTEIN KINASE LOK-RELATED | 10 | 213 | 1.5E-45 |
| 1 | g12844.t1 | Pfam | PF00069 | Protein kinase domain | 6 | 200 | 6.0E-43 |
| 6 | g12844.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 59 | - |
| 7 | g12844.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 60 | 76 | - |
| 5 | g12844.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 77 | 216 | - |
| 8 | g12844.t1 | ProSitePatterns | PS00108 | Serine/Threonine protein kinases active-site signature. | 111 | 123 | - |
| 10 | g12844.t1 | ProSiteProfiles | PS50011 | Protein kinase domain profile. | 1 | 216 | 33.601 |
| 9 | g12844.t1 | SMART | SM00220 | serkin_6 | 4 | 216 | 9.2E-25 |
| 3 | g12844.t1 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 8 | 194 | 8.0E-51 |
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.
