General information for g2337.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein phosphatase 1B.
Parent gene
- The parent gene g2337 is located on chr_3: 16899941..16903773 (- 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 | g2337 | g2337.t16 | isoform | g2337.t16 | 16899941 | 16900537 |
| chr_3 | g2337 | g2337.t16 | exon | g2337.t16.exon1 | 16899941 | 16900382 |
| chr_3 | g2337 | g2337.t16 | cds | g2337.t16.CDS1 | 16899943 | 16900382 |
| chr_3 | g2337 | g2337.t16 | exon | g2337.t16.exon2 | 16900447 | 16900537 |
| chr_3 | g2337 | g2337.t16 | cds | g2337.t16.CDS2 | 16900447 | 16900537 |
| chr_3 | g2337 | g2337.t16 | TSS | g2337.t16 | NA | NA |
| chr_3 | g2337 | g2337.t16 | TTS | g2337.t16 | NA | NA |
Sequences
>g2337.t16 Gene=g2337 Length=533
ATGGGAGCATTTTTGGAAAAGCCCAATACAAACAAACACAATGAGAATGGTGAGGGCAAT
GGATTGCGATTTGGAGTGAGTTCAATGCAAGGATGGCGTTGCGAAATGGAAGATGCTCAT
TTTGCAAGAACAAATTTAGGAGAAGATTTGGCAGATTGGAGTTATTTTGCGGTGTTTGAC
GGACATGCAGGTTTTAAAGTGTCTGAACATTGTGCGCAGCATTTATTAGAAGCGATCATA
CACACAGAAGAGTTTAAAGGCAATGATGTTGTGAAGGGAATACACTCTGGCTTCTTAAAA
TTGGATAACATAATGCGAGATATACCTGAATTAGCAAGCGGTGCTGATAAATCTGGAACT
ACTGCCGTTTGTGCATTCATATCAAGTGATAGTATTTATATTGCAAATTGCGGTGATTCA
CGTGCTGTATTGTGTCGAAATGGCAATCCAGTATTCTCAACGCAAGATCACAAACCGATT
CTGCCATCTGAAAAGGAACGAATTGTAAATGCAGGAGGATCGGTTATGGTACA
>g2337.t16 Gene=g2337 Length=177
MGAFLEKPNTNKHNENGEGNGLRFGVSSMQGWRCEMEDAHFARTNLGEDLADWSYFAVFD
GHAGFKVSEHCAQHLLEAIIHTEEFKGNDVVKGIHSGFLKLDNIMRDIPELASGADKSGT
TAVCAFISSDSIYIANCGDSRAVLCRNGNPVFSTQDHKPILPSEKERIVNAGGSVMV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g2337.t16 | CDD | cd00143 | PP2Cc | 23 | 177 | 1.64479E-53 |
| 5 | g2337.t16 | Gene3D | G3DSA:3.60.40.10 | Phosphatase 2c; Domain 1 | 1 | 177 | 8.6E-67 |
| 9 | g2337.t16 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - |
| 2 | g2337.t16 | PANTHER | PTHR47992:SF121 | PROTEIN PHOSPHATASE 1A | 2 | 177 | 1.5E-58 |
| 3 | g2337.t16 | PANTHER | PTHR47992 | ALPHABET, ISOFORM E-RELATED | 2 | 177 | 1.5E-58 |
| 1 | g2337.t16 | Pfam | PF00481 | Protein phosphatase 2C | 23 | 176 | 1.6E-44 |
| 7 | g2337.t16 | ProSitePatterns | PS01032 | PPM-type phosphatase domain signature. | 55 | 63 | - |
| 10 | g2337.t16 | ProSiteProfiles | PS51746 | PPM-type phosphatase domain profile. | 23 | 177 | 30.421 |
| 8 | g2337.t16 | SMART | SM00332 | PP2C_4 | 13 | 177 | 8.3E-26 |
| 4 | g2337.t16 | SUPERFAMILY | SSF81606 | PP2C-like | 3 | 176 | 1.19E-48 |
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:0043169 | cation binding | MF |
| GO:0016791 | phosphatase activity | MF |
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.
