General information for g13902.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phosphatidylinositol 4,5-bisphosphate 5-phosphatase A.
Parent gene
- The parent gene g13902 is located on chr_1: 33207729..33208355 (+ 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_1 | g13902 | g13902.t12 | isoform | g13902.t12 | 33206184 | 33208355 |
| chr_1 | g13902 | g13902.t12 | exon | g13902.t12.exon1 | 33206184 | 33206531 |
| chr_1 | g13902 | g13902.t12 | cds | g13902.t12.CDS1 | 33206430 | 33206531 |
| chr_1 | g13902 | g13902.t12 | exon | g13902.t12.exon2 | 33206600 | 33207172 |
| chr_1 | g13902 | g13902.t12 | cds | g13902.t12.CDS2 | 33206600 | 33207172 |
| chr_1 | g13902 | g13902.t12 | exon | g13902.t12.exon3 | 33207556 | 33207661 |
| chr_1 | g13902 | g13902.t12 | cds | g13902.t12.CDS3 | 33207556 | 33207661 |
| chr_1 | g13902 | g13902.t12 | exon | g13902.t12.exon4 | 33207729 | 33208355 |
| chr_1 | g13902 | g13902.t12 | cds | g13902.t12.CDS4 | 33207729 | 33208018 |
| chr_1 | g13902 | g13902.t12 | TTS | g13902.t12 | 33208453 | 33208453 |
| chr_1 | g13902 | g13902.t12 | TSS | g13902.t12 | NA | NA |
Sequences
>g13902.t12 Gene=g13902 Length=1654
AGTATATACATCGTCACGTGGAATGTTTCTACGAAATATCCTGATAAGCTGAAACTCAAT
GATTTGTTAGATATTGATTCACACTTTAAAGAAAAATGTCTACCCGATATCTATGTCATT
GGTCTCCAAGAAGTAAATGCAAACCCGCAGAATGTTTTATACAATTTATTTCAAGCTGAC
CCATGGGTACAAAAATTAAAGCAACTGTTGAAGCCGTTAAGCTATTTCGTTGCCCAGTCA
GAACAAATGCAAGGACTGTTAACGGTGGTGTTCGTTAAACGGAAACATTTGTATCACATA
AGAGAAATTGAAAGTGAATATGTTCGTACAGGCCTTGGCGGTATGTGGGGCAATAAAGGA
GCAGTAGCAATTAGAATGAATTGTTATGGATGCTCAATATGTCTTGTAAATTCGCATTTA
GCAGCTCACGATGAAATGATTGAAGAGCGTATTAATGACTATCAACGAATTAAAGAAGCG
ATCAATTTCAGTGTTAAATTTAACAAAAACATTTATGATCACGATTATGTCTTTTGGTTT
GGTGATCTTAATTTTAGATTGTATGATCCATATAATCAAAGTCGAAATCATACACCAGAT
GAAATACGCGATTTGGTTAAGAAAGATTGCCTCAATGAATTAATTAGAATAGATCAATTA
TCAATGGCAATGTGTGAAGGTCGTGCTTTTTCAGAATTAGTTGAGAGATTGCCACAATTC
CCACCAACATTCAAATTCGTACAAGATTCCAATGATTATGATATGAAACGAAGACCAGCA
TGGTGTGATAGAATTCTTTACAAAGGTCGAACGAAAATTCTTAAAAATTGCTCTCTTCAT
CTCGAACAAATTTCGTACAAGAGCCATCCAAATTACAATATTAGCGATCACAAACCAGTA
TCGTCTGAGTTTAAGATTAATGCACCAGATGATGATATTACTGATTTGATAATTAAGTTT
AAACCACTATCTGTGTGGAATAACAGCGAACAAAATGAAGTTGAATACATCTTGCCACCT
AATTATGTTGGTGGAAATGCAGATTGGATTGGTGTTTATCCTGAAGATTTTACTGGTTTT
GATGAATACATTGGTTATGAGTATACCGACACCGCTGATGAAAAGGCTCAGCCAACTTCC
CGCACAATAAAACTCAACTTTTCGGATTCAATAAATTTACCTGTCGGTGATGGTAAATTT
GTGTTGCTTTACTTCCAATCAACAGGAATGAGAGGATATTCAAGTATGGTTGGAATGAGC
GAACCATTCCCAGCCATTAAAAGATGCCCATCACCACGACCTGATACAATTGATTAAAGA
GTTGCCAATTTTATTGAAAATAAAAATGTACTTTAAGTATTAACTGTTCAATTTAAAGCC
TTCAATATATACACGCGTAATATTAGCACAAGTGCTTTAATATAAAATTTACAAACCATA
ATAAGAATTTACTTTTGTGACCATTTTAATGACTTAATAATTAATTTAACAATAATCAAG
ATTGTGCAATAATCTATCTTCCATTCCCAATTATTATTTTTATAAAAAGAGCATTATTTA
TTTAGGATGACTTTTTTTTTATTGACCGTGTTTTTTATATTATAAATTTTTGCGTTTTCC
AATAGTTTCAATTTCAATCAATTTTCATGCGTGT
>g13902.t12 Gene=g13902 Length=356
MQGLLTVVFVKRKHLYHIREIESEYVRTGLGGMWGNKGAVAIRMNCYGCSICLVNSHLAA
HDEMIEERINDYQRIKEAINFSVKFNKNIYDHDYVFWFGDLNFRLYDPYNQSRNHTPDEI
RDLVKKDCLNELIRIDQLSMAMCEGRAFSELVERLPQFPPTFKFVQDSNDYDMKRRPAWC
DRILYKGRTKILKNCSLHLEQISYKSHPNYNISDHKPVSSEFKINAPDDDITDLIIKFKP
LSVWNNSEQNEVEYILPPNYVGGNADWIGVYPEDFTGFDEYIGYEYTDTADEKAQPTSRT
IKLNFSDSINLPVGDGKFVLLYFQSTGMRGYSSMVGMSEPFPAIKRCPSPRPDTID
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g13902.t12 | Gene3D | G3DSA:3.60.10.10 | - | 1 | 231 | 0.0e+00 |
| 7 | g13902.t12 | Gene3D | G3DSA:2.60.40.2840 | - | 236 | 349 | 3.0e-07 |
| 3 | g13902.t12 | PANTHER | PTHR11200 | INOSITOL 5-PHOSPHATASE | 1 | 228 | 0.0e+00 |
| 2 | g13902.t12 | Pfam | PF03372 | Endonuclease/Exonuclease/phosphatase family | 20 | 215 | 1.2e-05 |
| 1 | g13902.t12 | Pfam | PF17751 | SKICH domain | 236 | 342 | 0.0e+00 |
| 5 | g13902.t12 | SMART | SM00128 | i5p_5 | 1 | 230 | 0.0e+00 |
| 4 | g13902.t12 | SUPERFAMILY | SSF56219 | DNase I-like | 3 | 235 | 0.0e+00 |
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:0046856 | phosphatidylinositol dephosphorylation | BP |
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.
