General information for g3858.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dual specificity protein phosphatase Mpk3.
Parent gene
- The parent gene g3858 is located on chr_3: 28395908..28397217 (+ 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 | g3858 | g3858.t1 | TSS | g3858.t1 | 28392189 | 28392189 |
| chr_3 | g3858 | g3858.t1 | isoform | g3858.t1 | 28392992 | 28396099 |
| chr_3 | g3858 | g3858.t1 | exon | g3858.t1.exon1 | 28392992 | 28393169 |
| chr_3 | g3858 | g3858.t1 | cds | g3858.t1.CDS1 | 28392992 | 28393169 |
| chr_3 | g3858 | g3858.t1 | exon | g3858.t1.exon2 | 28393278 | 28393463 |
| chr_3 | g3858 | g3858.t1 | cds | g3858.t1.CDS2 | 28393278 | 28393463 |
| chr_3 | g3858 | g3858.t1 | exon | g3858.t1.exon3 | 28394416 | 28394515 |
| chr_3 | g3858 | g3858.t1 | cds | g3858.t1.CDS3 | 28394416 | 28394515 |
| chr_3 | g3858 | g3858.t1 | exon | g3858.t1.exon4 | 28395137 | 28395521 |
| chr_3 | g3858 | g3858.t1 | cds | g3858.t1.CDS4 | 28395137 | 28395521 |
| chr_3 | g3858 | g3858.t1 | exon | g3858.t1.exon5 | 28395583 | 28395967 |
| chr_3 | g3858 | g3858.t1 | cds | g3858.t1.CDS5 | 28395583 | 28395967 |
| chr_3 | g3858 | g3858.t1 | exon | g3858.t1.exon6 | 28396050 | 28396099 |
| chr_3 | g3858 | g3858.t1 | cds | g3858.t1.CDS6 | 28396050 | 28396099 |
| chr_3 | g3858 | g3858.t1 | TTS | g3858.t1 | NA | NA |
Sequences
>g3858.t1 Gene=g3858 Length=1284
ATGCCTGATACAGAAATTGAACTAATTGACAAAAGTAACTTAATCACAGAACTTCGCAGC
TGTAAAAAAGAAATCATAATTCTCGATTGTCGTTCTCCAAATGACTATGCCATCTCTCAT
ATTCTCAATGCGACAAACATTACTCTTCCAACGATAATGCTGCGTAGACTTAAAGAAGGT
AAAACTGACTTATTCAGTACAATAAAATGCAAGGATCTAAAGAACAGAATTCTTGGAATG
AACGTTCAAACACTCTTCGTTTTATATCATAATGGATCAACATTTCCTGATGTCATGCAA
GTTTTATCGCGAAAGCTTAAGGCTGAGTTCAACGATAAGAAAATTCGTGTTGTATGTTTA
GCTGATGGATTTATGAATTTTCAAGCATCTTTTCCCGAGTGGTGTCAAGATGAGCGTTCT
AATATGCAATCAAATTCCAGTTCTGAACAATTAATGGGTCTGAGATCTCTGCGAATCTCC
ACGCCATTATCAGATTCGGCGTGCAGTAGCTCTACTGAGTCATCTGATGGCGAAAGCGGA
TCAAATTATCCAATTGAACCTTATGGCGGTGAACCGATAGAAATTCTTCCAGGTTTATTT
TTGGGTAATGCAGCGCACAGTGAAGACATTACAAAAATCCAAAAATATAACATTAGACAC
ATTCTTAATGTATCGACATTACCAAATGTGTTTCAAGACACAGGCAAAATTGAATATCTT
CAAATTCCAATAACTGATCATTGGTCTCAAGATTTGAGTATACATTTTCCTGCTGCCATA
AAATTCATTGAAGAAGCAAAGACTAAAAATGTCTCATGTTTGGTTCATTGTCTAGCCGGT
GTTAGTCGATCAGTGACAATTACACTCGCATATCTTATGTATGCCAAAGATTTAGGCTTA
AATGATGCATTTACATTTGTACGTGCGAGAAAACCTGATATAAGTCCCAATTTCCATTTT
ATGGAGCAACTTTATACTTTTGAACGTCAATTAAAAAATGATCCAAGCAGAAGAGCAACT
CCTACAGCATCGTCCACAGCTTCATCTGCTACAACGCCCTCAACGTTTAGCTCAAGTGCC
ACACCTTCATCAGCCGGATCATCATTGAGAGATAATCGATATAATCGTTATCGACACATT
AAATATTCATGCGTTTGCAATGAAAATGAATGTAAGTGTCTACAAAATGATCTCCTATTA
GGACCATTAAACATAGGAATTTCACCCGACTCAGGAATAGAATTTGATCTGCGTTCAGAT
ACGAATACGCATACGCCCAAATAA
>g3858.t1 Gene=g3858 Length=427
MPDTEIELIDKSNLITELRSCKKEIIILDCRSPNDYAISHILNATNITLPTIMLRRLKEG
KTDLFSTIKCKDLKNRILGMNVQTLFVLYHNGSTFPDVMQVLSRKLKAEFNDKKIRVVCL
ADGFMNFQASFPEWCQDERSNMQSNSSSEQLMGLRSLRISTPLSDSACSSSTESSDGESG
SNYPIEPYGGEPIEILPGLFLGNAAHSEDITKIQKYNIRHILNVSTLPNVFQDTGKIEYL
QIPITDHWSQDLSIHFPAAIKFIEEAKTKNVSCLVHCLAGVSRSVTITLAYLMYAKDLGL
NDAFTFVRARKPDISPNFHFMEQLYTFERQLKNDPSRRATPTASSTASSATTPSTFSSSA
TPSSAGSSLRDNRYNRYRHIKYSCVCNENECKCLQNDLLLGPLNIGISPDSGIEFDLRSD
TNTHTPK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g3858.t1 | CDD | cd01446 | DSP_MapKP | 8 | 135 | 6.74515E-27 |
| 17 | g3858.t1 | Gene3D | G3DSA:3.40.250.10 | Oxidized Rhodanese | 4 | 141 | 3.3E-29 |
| 16 | g3858.t1 | Gene3D | G3DSA:3.90.190.10 | Protein tyrosine phosphatase superfamily | 179 | 337 | 1.1E-48 |
| 22 | g3858.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 331 | 368 | - |
| 21 | g3858.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 336 | 368 | - |
| 3 | g3858.t1 | PANTHER | PTHR10159 | DUAL SPECIFICITY PROTEIN PHOSPHATASE | 1 | 361 | 2.9E-110 |
| 4 | g3858.t1 | PANTHER | PTHR10159:SF517 | DUAL SPECIFICITY PROTEIN PHOSPHATASE MPK3 | 1 | 361 | 2.9E-110 |
| 9 | g3858.t1 | PRINTS | PR01764 | MAP kinase phosphatase signature | 26 | 36 | 8.9E-9 |
| 12 | g3858.t1 | PRINTS | PR01764 | MAP kinase phosphatase signature | 52 | 64 | 8.9E-9 |
| 8 | g3858.t1 | PRINTS | PR01908 | Atypical dual specificity phosphatase family signature | 196 | 208 | 8.3E-5 |
| 6 | g3858.t1 | PRINTS | PR01908 | Atypical dual specificity phosphatase family signature | 213 | 224 | 8.3E-5 |
| 11 | g3858.t1 | PRINTS | PR01764 | MAP kinase phosphatase signature | 218 | 228 | 8.9E-9 |
| 5 | g3858.t1 | PRINTS | PR01908 | Atypical dual specificity phosphatase family signature | 239 | 248 | 8.3E-5 |
| 13 | g3858.t1 | PRINTS | PR01764 | MAP kinase phosphatase signature | 239 | 248 | 8.9E-9 |
| 7 | g3858.t1 | PRINTS | PR01908 | Atypical dual specificity phosphatase family signature | 255 | 266 | 8.3E-5 |
| 10 | g3858.t1 | PRINTS | PR01764 | MAP kinase phosphatase signature | 255 | 267 | 8.9E-9 |
| 2 | g3858.t1 | Pfam | PF00581 | Rhodanese-like domain | 22 | 129 | 6.3E-7 |
| 1 | g3858.t1 | Pfam | PF00782 | Dual specificity phosphatase, catalytic domain | 199 | 330 | 1.2E-37 |
| 25 | g3858.t1 | ProSiteProfiles | PS50206 | Rhodanese domain profile. | 21 | 136 | 11.297 |
| 23 | g3858.t1 | ProSiteProfiles | PS50054 | Dual specificity protein phosphatase family profile. | 191 | 332 | 41.007 |
| 24 | g3858.t1 | ProSiteProfiles | PS50056 | Tyrosine specific protein phosphatases family profile. | 254 | 314 | 12.943 |
| 19 | g3858.t1 | SMART | SM00450 | rhod_4 | 11 | 133 | 3.0E-9 |
| 20 | g3858.t1 | SMART | SM00195 | dsp_5 | 191 | 330 | 1.1E-52 |
| 15 | g3858.t1 | SUPERFAMILY | SSF52821 | Rhodanese/Cell cycle control phosphatase | 4 | 137 | 2.36E-22 |
| 14 | g3858.t1 | SUPERFAMILY | SSF52799 | (Phosphotyrosine protein) phosphatases II | 186 | 334 | 4.22E-41 |
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:0017017 | MAP kinase tyrosine/serine/threonine phosphatase activity | MF |
| GO:0008138 | protein tyrosine/serine/threonine phosphatase activity | MF |
| GO:0006470 | protein dephosphorylation | BP |
| GO:0016311 | dephosphorylation | BP |
| GO:0016791 | phosphatase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K04459 (dual specificity MAP kinase 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.
