General information for g2337.t1
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.t1 | TTS | g2337.t1 | 16896666 | 16896666 |
| chr_3 | g2337 | g2337.t1 | isoform | g2337.t1 | 16897223 | 16900537 |
| chr_3 | g2337 | g2337.t1 | exon | g2337.t1.exon1 | 16897223 | 16897292 |
| chr_3 | g2337 | g2337.t1 | cds | g2337.t1.CDS1 | 16897223 | 16897292 |
| chr_3 | g2337 | g2337.t1 | exon | g2337.t1.exon2 | 16897364 | 16897466 |
| chr_3 | g2337 | g2337.t1 | cds | g2337.t1.CDS2 | 16897364 | 16897466 |
| chr_3 | g2337 | g2337.t1 | exon | g2337.t1.exon3 | 16899432 | 16899549 |
| chr_3 | g2337 | g2337.t1 | cds | g2337.t1.CDS3 | 16899432 | 16899549 |
| chr_3 | g2337 | g2337.t1 | exon | g2337.t1.exon4 | 16899606 | 16899731 |
| chr_3 | g2337 | g2337.t1 | cds | g2337.t1.CDS4 | 16899606 | 16899731 |
| chr_3 | g2337 | g2337.t1 | exon | g2337.t1.exon5 | 16899790 | 16900382 |
| chr_3 | g2337 | g2337.t1 | cds | g2337.t1.CDS5 | 16899790 | 16900382 |
| chr_3 | g2337 | g2337.t1 | exon | g2337.t1.exon6 | 16900447 | 16900537 |
| chr_3 | g2337 | g2337.t1 | cds | g2337.t1.CDS6 | 16900447 | 16900537 |
| chr_3 | g2337 | g2337.t1 | TSS | g2337.t1 | NA | NA |
Sequences
>g2337.t1 Gene=g2337 Length=1101
ATGGGAGCATTTTTGGAAAAGCCCAATACAAACAAACACAATGAGAATGGTGAGGGCAAT
GGATTGCGATTTGGAGTGAGTTCAATGCAAGGATGGCGTTGCGAAATGGAAGATGCTCAT
TTTGCAAGAACAAATTTAGGAGAAGATTTGGCAGATTGGAGTTATTTTGCGGTGTTTGAC
GGACATGCAGGTTTTAAAGTGTCTGAACATTGTGCGCAGCATTTATTAGAAGCGATCATA
CACACAGAAGAGTTTAAAGGCAATGATGTTGTGAAGGGAATACACTCTGGCTTCTTAAAA
TTGGATAACATAATGCGAGATATACCTGAATTAGCAAGCGGTGCTGATAAATCTGGAACT
ACTGCCGTTTGTGCATTCATATCAAGTGATAGTATTTATATTGCAAATTGCGGTGATTCA
CGTGCTGTATTGTGTCGAAATGGCAATCCAGTATTCTCAACGCAAGATCACAAACCGATT
CTGCCATCTGAAAAGGAACGAATTGTAAATGCAGGAGGATCGGTTATGGTACAACGTGTC
AACGGTAGCCTCGCAGTATCGAGAGCACTTGGAGATTATGATTACAAAAATGTCTCGGAA
TTGGGTCAATGTGAACAGTTGGTATCACCTGAACCCGAGATTTTCTGCAAAGAACGTGAT
CCTCAGGACTTTTTTCTAGTGCTTGCTTGCGACGGTGTATGGGATGTGATGAGTAACGAG
GCCGTCTGTAATTTTGTTCATAATCGCCTTCGAATTTCTGATGACTTGGTGTGGATTTGT
AATCAAGTTATTGACACATGCTTGCACAAGGGTTCTCGCGATAATATGAGCATCATTCTA
ATAGTATTCCCCGGAGCGCCGAAACCTTCCAGTGAAGCTATTGAAGCAGAAGAGGAGCTT
GAGAGGAATATACGTAAAACTATAAAAGAATTCACAGAAAATACGGAGGCTGCATACGAT
GTGAGTTCATTAATGCGCTTATTAGCCAGCAGTAACATTCAGTGGCCGGAAGGTGGTGGT
ATAGAATCTAAATATAAACTTATTACGGAAGTATTTAAGGAAATCTGTCCTGATCTCACT
GATGCAGAATTCGAGTTTTAA
>g2337.t1 Gene=g2337 Length=366
MGAFLEKPNTNKHNENGEGNGLRFGVSSMQGWRCEMEDAHFARTNLGEDLADWSYFAVFD
GHAGFKVSEHCAQHLLEAIIHTEEFKGNDVVKGIHSGFLKLDNIMRDIPELASGADKSGT
TAVCAFISSDSIYIANCGDSRAVLCRNGNPVFSTQDHKPILPSEKERIVNAGGSVMVQRV
NGSLAVSRALGDYDYKNVSELGQCEQLVSPEPEIFCKERDPQDFFLVLACDGVWDVMSNE
AVCNFVHNRLRISDDLVWICNQVIDTCLHKGSRDNMSIILIVFPGAPKPSSEAIEAEEEL
ERNIRKTIKEFTENTEAAYDVSSLMRLLASSNIQWPEGGGIESKYKLITEVFKEICPDLT
DAEFEF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g2337.t1 | CDD | cd00143 | PP2Cc | 23 | 283 | 3.54658E-97 |
| 9 | g2337.t1 | Coils | Coil | Coil | 290 | 314 | - |
| 8 | g2337.t1 | Gene3D | G3DSA:3.60.40.10 | Phosphatase 2c; Domain 1 | 1 | 288 | 8.8E-116 |
| 7 | g2337.t1 | Gene3D | G3DSA:1.10.10.430 | Phosphatase 2C; domain 2 | 289 | 358 | 2.6E-13 |
| 13 | g2337.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - |
| 3 | g2337.t1 | PANTHER | PTHR47992:SF121 | PROTEIN PHOSPHATASE 1A | 2 | 325 | 1.6E-117 |
| 4 | g2337.t1 | PANTHER | PTHR47992 | ALPHABET, ISOFORM E-RELATED | 2 | 325 | 1.6E-117 |
| 2 | g2337.t1 | Pfam | PF00481 | Protein phosphatase 2C | 23 | 276 | 7.8E-81 |
| 1 | g2337.t1 | Pfam | PF07830 | Protein serine/threonine phosphatase 2C, C-terminal domain | 277 | 353 | 4.5E-23 |
| 12 | g2337.t1 | ProSitePatterns | PS01032 | PPM-type phosphatase domain signature. | 55 | 63 | - |
| 14 | g2337.t1 | ProSiteProfiles | PS51746 | PPM-type phosphatase domain profile. | 23 | 283 | 50.875 |
| 11 | g2337.t1 | SMART | SM00332 | PP2C_4 | 13 | 281 | 4.1E-92 |
| 5 | g2337.t1 | SUPERFAMILY | SSF81606 | PP2C-like | 3 | 285 | 2.35E-88 |
| 6 | g2337.t1 | SUPERFAMILY | SSF81601 | Protein serine/threonine phosphatase 2C, C-terminal domain | 290 | 357 | 4.97E-11 |
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:0000287 | magnesium ion binding | MF |
| GO:0043169 | cation binding | MF |
| GO:0004721 | phosphoprotein phosphatase activity | MF |
| GO:0016791 | phosphatase activity | MF |
| GO:0030145 | manganese ion binding | MF |
KEGG
Orthology
- This transcript has been annotated with K04461 (protein phosphatase 1B)
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.
