General information for g8538.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Type 1 phosphatidylinositol 4,5-bisphosphate 4-phosphatase.
Parent gene
- The parent gene g8538 is located on chr_2: 31156602..31157131 (+ 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_2 | g8538 | g8538.t1 | TSS | g8538.t1 | 31155464 | 31155464 |
| chr_2 | g8538 | g8538.t1 | isoform | g8538.t1 | 31155759 | 31157131 |
| chr_2 | g8538 | g8538.t1 | exon | g8538.t1.exon1 | 31155759 | 31155819 |
| chr_2 | g8538 | g8538.t1 | cds | g8538.t1.CDS1 | 31155759 | 31155819 |
| chr_2 | g8538 | g8538.t1 | exon | g8538.t1.exon2 | 31156221 | 31156408 |
| chr_2 | g8538 | g8538.t1 | cds | g8538.t1.CDS2 | 31156221 | 31156408 |
| chr_2 | g8538 | g8538.t1 | exon | g8538.t1.exon3 | 31156514 | 31156521 |
| chr_2 | g8538 | g8538.t1 | cds | g8538.t1.CDS3 | 31156514 | 31156521 |
| chr_2 | g8538 | g8538.t1 | exon | g8538.t1.exon4 | 31156588 | 31156954 |
| chr_2 | g8538 | g8538.t1 | cds | g8538.t1.CDS4 | 31156588 | 31156954 |
| chr_2 | g8538 | g8538.t1 | exon | g8538.t1.exon5 | 31157015 | 31157131 |
| chr_2 | g8538 | g8538.t1 | cds | g8538.t1.CDS5 | 31157015 | 31157131 |
| chr_2 | g8538 | g8538.t1 | TTS | g8538.t1 | 31158033 | 31158033 |
Sequences
>g8538.t1 Gene=g8538 Length=741
ATGGATGAAAAACAGCCATTGCTTAAAAATGGAAATGAAAATCAGGATGTTGAGAATGCA
GGAGATAGTGCAGTTCAACAGCAAACATCTGGATTTAGTGTCCCGCAAGATGAACTTCCT
CCTCCATATACGTCGAATGAGGAGCGAGGATTGCCAATGGTCACTTGTCGCGTTTGTTCT
GCAATGATTGACATCTCTTGGAAGCGAGAACAACATGTTGTCAAATGTAACCAATGCAAT
GAAGCAACGCCAATAAGAAATGCTCCACCAGGAAAAAAATACGTCAGATGTCCATGCAAT
TGTTTGTTAATTTGCAAGAGCTCTTCTCAACGTGTTGCATGTCCACGACCAAATTGCAAA
CGAATCATCAATTTAGCACCAAGTCCTGTTACGCCACCTGTTCCGACAATGCCGGGAATG
TGCCGAGTAACTTGTGGCCATTGTCATGATACTTTCTTATTCAATACGCTCACAAATGCG
CTAGCTAGATGCCCACATTGTCGTAAAGTCTCTTCAGTTGGTGTGGAATTTGCAAAAAAT
CGAAGCAATGTCTATCTTGCTCTTGGAATAGTTTTTCTTGCCATCGGTTTTGCAATTTTG
TGGGCTACATATTCATATGCATCTACACACACCGGTATATGGCTTGCATATGTTGGCATG
TTCTTAGTTTCAGCATTGCTCTTTGCACGTACATTCTACTATCGACGAATGAAAGTAAGC
GTTATAGAAGGACCAATATAA
>g8538.t1 Gene=g8538 Length=246
MDEKQPLLKNGNENQDVENAGDSAVQQQTSGFSVPQDELPPPYTSNEERGLPMVTCRVCS
AMIDISWKREQHVVKCNQCNEATPIRNAPPGKKYVRCPCNCLLICKSSSQRVACPRPNCK
RIINLAPSPVTPPVPTMPGMCRVTCGHCHDTFLFNTLTNALARCPHCRKVSSVGVEFAKN
RSNVYLALGIVFLAIGFAILWATYSYASTHTGIWLAYVGMFLVSALLFARTFYYRRMKVS
VIEGPI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g8538.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 46 | - |
| 6 | g8538.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 10 | 35 | - |
| 2 | g8538.t1 | PANTHER | PTHR21014:SF6 | PHOSPHATIDYLINOSITOL-4,5-BISPHOSPHATE 4-PHOSPHATASE | 2 | 245 | 3.0E-101 |
| 3 | g8538.t1 | PANTHER | PTHR21014 | UNCHARACTERIZED | 2 | 245 | 3.0E-101 |
| 1 | g8538.t1 | Pfam | PF09788 | Transmembrane protein 55A | 2 | 240 | 4.0E-103 |
| 8 | g8538.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 183 | - |
| 12 | g8538.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 184 | 207 | - |
| 10 | g8538.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 208 | 212 | - |
| 11 | g8538.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 213 | 233 | - |
| 9 | g8538.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 234 | 246 | - |
| 5 | g8538.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 185 | 207 | - |
| 4 | g8538.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 212 | 234 | - |
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:0034597 | phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity | MF |
| GO:0046856 | phosphatidylinositol dephosphorylation | BP |
KEGG
Orthology
- This transcript has been annotated with K13084 (phosphatidylinositol-4,5-bisphosphate 4-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.
