General information for g1851.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Low molecular weight phosphotyrosine protein phosphatase 1.
Parent gene
- The parent gene g1851 is located on chr_3: 13347848..13349057 (+ 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 | g1851 | g1851.t1 | TSS | g1851.t1 | 13347031 | 13347031 |
| chr_3 | g1851 | g1851.t1 | isoform | g1851.t1 | 13347087 | 13347848 |
| chr_3 | g1851 | g1851.t1 | exon | g1851.t1.exon1 | 13347087 | 13347222 |
| chr_3 | g1851 | g1851.t1 | cds | g1851.t1.CDS1 | 13347087 | 13347222 |
| chr_3 | g1851 | g1851.t1 | exon | g1851.t1.exon2 | 13347276 | 13347356 |
| chr_3 | g1851 | g1851.t1 | cds | g1851.t1.CDS2 | 13347276 | 13347356 |
| chr_3 | g1851 | g1851.t1 | exon | g1851.t1.exon3 | 13347413 | 13347610 |
| chr_3 | g1851 | g1851.t1 | cds | g1851.t1.CDS3 | 13347413 | 13347610 |
| chr_3 | g1851 | g1851.t1 | exon | g1851.t1.exon4 | 13347784 | 13347848 |
| chr_3 | g1851 | g1851.t1 | cds | g1851.t1.CDS4 | 13347784 | 13347848 |
| chr_3 | g1851 | g1851.t1 | TTS | g1851.t1 | 13347910 | 13347910 |
Sequences
>g1851.t1 Gene=g1851 Length=480
ATGAGTGATAAAAAGAACGTACTATTTATTTGTTTAGGCAATATATGCAGGTCGCCAATC
GCTGAAGCTGTTTTCATTGATACAGTCAAGAAGAATAATGTTGCAGATAAATTTTATATT
GATTCAGCAGCTATAGGACCTTGGCATGTCGGAAAAAAGCCAGATCGCCGTGCACTTGAA
ACTATGAAAAATCATAATTTAGAATACAATAATAAAGCACGGCAATTGAAAACTGAAGAT
TTTCGTAAATTTCATTATATTTTTGGTATGGATGGTGAAAACATGGCAGATTTAGAAGAC
ATGAAACCAAGCGATGGAATCGCAAAATTATTACTTCTCGGAGATTTTGACCCACAAGGT
GAAAGAATAATTCGCGATCCTTATTATGATGGAAATTCAGCTGGATTTGAGAAAGCTTAT
GTACAATCAGTGAGATGTTGCGAAGCTTTCTTGAAGAAGTTGTTGGCTGGTGAAGTTTAA
>g1851.t1 Gene=g1851 Length=159
MSDKKNVLFICLGNICRSPIAEAVFIDTVKKNNVADKFYIDSAAIGPWHVGKKPDRRALE
TMKNHNLEYNNKARQLKTEDFRKFHYIFGMDGENMADLEDMKPSDGIAKLLLLGDFDPQG
ERIIRDPYYDGNSAGFEKAYVQSVRCCEAFLKKLLAGEV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 20 | g1851.t1 | CDD | cd16343 | LMWPTP | 5 | 152 | 1.8306E-66 |
| 14 | g1851.t1 | Coils | Coil | Coil | 59 | 79 | - |
| 13 | g1851.t1 | Gene3D | G3DSA:3.40.50.2300 | - | 1 | 158 | 1.3E-53 |
| 2 | g1851.t1 | PANTHER | PTHR11717 | LOW MOLECULAR WEIGHT PROTEIN TYROSINE PHOSPHATASE | 3 | 155 | 5.9E-57 |
| 3 | g1851.t1 | PANTHER | PTHR11717:SF7 | LOW MOLECULAR WEIGHT PHOSPHOTYROSINE PROTEIN PHOSPHATASE | 3 | 155 | 5.9E-57 |
| 8 | g1851.t1 | PRINTS | PR00719 | LMW phosphotyrosine protein phosphatase signature | 7 | 24 | 6.9E-24 |
| 7 | g1851.t1 | PRINTS | PR00719 | LMW phosphotyrosine protein phosphatase signature | 50 | 66 | 6.9E-24 |
| 11 | g1851.t1 | PRINTS | PR00720 | Mammalian LMW phosphotyrosine protein phosphatase signature | 69 | 84 | 2.3E-8 |
| 5 | g1851.t1 | PRINTS | PR00719 | LMW phosphotyrosine protein phosphatase signature | 83 | 98 | 6.9E-24 |
| 10 | g1851.t1 | PRINTS | PR00720 | Mammalian LMW phosphotyrosine protein phosphatase signature | 86 | 106 | 2.3E-8 |
| 4 | g1851.t1 | PRINTS | PR00719 | LMW phosphotyrosine protein phosphatase signature | 106 | 119 | 6.9E-24 |
| 6 | g1851.t1 | PRINTS | PR00719 | LMW phosphotyrosine protein phosphatase signature | 124 | 139 | 6.9E-24 |
| 9 | g1851.t1 | PRINTS | PR00720 | Mammalian LMW phosphotyrosine protein phosphatase signature | 132 | 153 | 2.3E-8 |
| 1 | g1851.t1 | Pfam | PF01451 | Low molecular weight phosphotyrosine protein phosphatase | 7 | 151 | 4.8E-38 |
| 16 | g1851.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 23 | - |
| 17 | g1851.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 6 | - |
| 18 | g1851.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 7 | 15 | - |
| 19 | g1851.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 23 | - |
| 15 | g1851.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 24 | 159 | - |
| 21 | g1851.t1 | SMART | SM00226 | LMWPc_2 | 5 | 153 | 3.0E-51 |
| 12 | g1851.t1 | SUPERFAMILY | SSF52788 | Phosphotyrosine protein phosphatases I | 2 | 154 | 8.5E-45 |
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:0004726 | non-membrane spanning protein tyrosine phosphatase activity | MF |
| GO:0006470 | protein dephosphorylation | BP |
| GO:0003993 | acid phosphatase activity | MF |
| GO:0004725 | protein tyrosine phosphatase activity | MF |
| GO:0005737 | cytoplasm | CC |
KEGG
Orthology
- This transcript has been annotated with K14394 (low molecular weight phosphotyrosine protein phosphatase)
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.
