General information for g4080.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Tyrosine-protein phosphatase corkscrew .
Parent gene
- The parent gene g4080 is located on chr_3: 30486393..30487933 (+ 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 | g4080 | g4080.t10 | isoform | g4080.t10 | 30486192 | 30487933 |
| chr_3 | g4080 | g4080.t10 | exon | g4080.t10.exon1 | 30486192 | 30486522 |
| chr_3 | g4080 | g4080.t10 | exon | g4080.t10.exon2 | 30486694 | 30486792 |
| chr_3 | g4080 | g4080.t10 | cds | g4080.t10.CDS1 | 30486772 | 30486792 |
| chr_3 | g4080 | g4080.t10 | exon | g4080.t10.exon3 | 30486886 | 30487166 |
| chr_3 | g4080 | g4080.t10 | cds | g4080.t10.CDS2 | 30486886 | 30487166 |
| chr_3 | g4080 | g4080.t10 | exon | g4080.t10.exon4 | 30487634 | 30487812 |
| chr_3 | g4080 | g4080.t10 | cds | g4080.t10.CDS3 | 30487634 | 30487812 |
| chr_3 | g4080 | g4080.t10 | exon | g4080.t10.exon5 | 30487884 | 30487933 |
| chr_3 | g4080 | g4080.t10 | cds | g4080.t10.CDS4 | 30487884 | 30487933 |
| chr_3 | g4080 | g4080.t10 | TTS | g4080.t10 | 30488059 | 30488059 |
| chr_3 | g4080 | g4080.t10 | TSS | g4080.t10 | NA | NA |
Sequences
>g4080.t10 Gene=g4080 Length=940
GAGAAAGGGAGGCTGTGGTGATGAATTTATTAGCAAGACATATATTGCAACGCAAGGATG
TCTACCAAATACAATTGTTGATTTCTGGAACATGATTTGGCAAGAAAATACGCGTGTGAT
TGTCATGACAACAAAGGAGATTGAGCGAACGAAGAAAAAGTGCGAAAAATATTGGCCTGA
TAGTGGACAAACACAAGAGTGGGGTCATGCAAAAGTGAAATGCTTAAGTGAAACTTCTAC
AAATGATTATACACTGCGAGAACTTTTATTTTCATGGAAAGGACAAGAAGGACGAAAAGT
TTATCATTATCATTATTTTTTGTGGCCTGATTTATGTTTCCTTTAGGTGACTGATTCCGG
AAGTGTTCTCAACTTCCTGCAAGATGTTAATGTACGGCAAGAACAATTAATGAGTGATGG
CGTTAATCCTGGTCCAATTTGTGTGCATTGCTCAGCTGGAATTGGACGTACAGGCACATT
TATTGTGATAGACATGATTCTTGACCAAATCGATCGTGAGGGACTCGATTGTGAAATAGA
TATTCATCGTACGATCTTGATGGTTCGTTCTCAACGTTCTGGAATGGTACAGACTGAAGC
TCAATACAAGTTTGTGTATTATGCGGTGCAACATTACATTCAAACAAAACTTCAGAGAAA
GCGTGCTGAACAACAGTCATTACAACACGGGCGAGAATATACGAATATAAAGTATGATGA
TGTGCGTAGTCCGCTGCCTCAATCGATTAGCCAAATGAGTTTGTACAATAACAACAACAA
CACGAGTAGCAACAACTCATATCAGCAGTCCTCGGGTATTATTGAACCATTGCCATTTCA
TCATCGTCAAGTTCCCGTTCCGCCATCATTTTCTGATTTTAGTTCGTCTGCTTATGAAAA
TTTGGATTCAATACCATCAAGACCGCCAAGAAAATCTTGA
>g4080.t10 Gene=g4080 Length=176
MSDGVNPGPICVHCSAGIGRTGTFIVIDMILDQIDREGLDCEIDIHRTILMVRSQRSGMV
QTEAQYKFVYYAVQHYIQTKLQRKRAEQQSLQHGREYTNIKYDDVRSPLPQSISQMSLYN
NNNNTSSNNSYQQSSGIIEPLPFHHRQVPVPPSFSDFSSSAYENLDSIPSRPPRKS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4080.t10 | Gene3D | G3DSA:3.90.190.10 | Protein tyrosine phosphatase superfamily | 2 | 97 | 3.1E-31 |
| 2 | g4080.t10 | PANTHER | PTHR46257 | TYROSINE-PROTEIN PHOSPHATASE CORKSCREW | 6 | 133 | 4.3E-53 |
| 4 | g4080.t10 | PRINTS | PR00700 | Protein tyrosine phosphatase signature | 9 | 27 | 1.2E-18 |
| 3 | g4080.t10 | PRINTS | PR00700 | Protein tyrosine phosphatase signature | 43 | 58 | 1.2E-18 |
| 5 | g4080.t10 | PRINTS | PR00700 | Protein tyrosine phosphatase signature | 59 | 69 | 1.2E-18 |
| 1 | g4080.t10 | Pfam | PF00102 | Protein-tyrosine phosphatase | 6 | 73 | 3.1E-22 |
| 8 | g4080.t10 | ProSitePatterns | PS00383 | Tyrosine specific protein phosphatases active site. | 12 | 22 | - |
| 10 | g4080.t10 | ProSiteProfiles | PS50056 | Tyrosine specific protein phosphatases family profile. | 1 | 67 | 20.366 |
| 11 | g4080.t10 | ProSiteProfiles | PS50055 | PTP type protein phosphatase family profile. | 1 | 76 | 17.489 |
| 9 | g4080.t10 | SMART | SM00404 | ptp_7 | 1 | 75 | 5.3E-16 |
| 6 | g4080.t10 | SUPERFAMILY | SSF52799 | (Phosphotyrosine protein) phosphatases II | 6 | 83 | 4.49E-30 |
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:0006470 | protein dephosphorylation | BP |
| GO:0016311 | dephosphorylation | BP |
| GO:0004725 | protein tyrosine phosphatase activity | 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.
