General information for g9530.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative WD repeat domain phosphoinositide-interacting protein 2.
Parent gene
- The parent gene g9530 is located on chr_1: 3913658..3914687 (- 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 | g9530 | g9530.t6 | TTS | g9530.t6 | 3912653 | 3912653 |
| chr_1 | g9530 | g9530.t6 | isoform | g9530.t6 | 3913658 | 3914687 |
| chr_1 | g9530 | g9530.t6 | exon | g9530.t6.exon1 | 3913658 | 3914687 |
| chr_1 | g9530 | g9530.t6 | cds | g9530.t6.CDS1 | 3913675 | 3913977 |
| chr_1 | g9530 | g9530.t6 | TSS | g9530.t6 | 3915105 | 3915105 |
Sequences
>g9530.t6 Gene=g9530 Length=1030
ATGGCAGTGAATATCGATGAAGGGGGAAATTGTTATGTTAATTTTAACCAGGATTTTACG
TAAGTAGAGTGAATAAACAATTGTTGATATCGATACTTTATTGTCTTCTTTGAGACAGTA
ATAATTATCGATTTTTTATACTTTTGCAAATCTTCACTTTGCTTTCATCCCTCCTTTAGA
AAATTTGTTACATTTCACGTTTAAACGAGTTTCTAAAAATAGTTCTTCTAATGCATTTTA
ATCACACAATTTCATAATTGAAGTAATAACTTATTCAAATGATGTTTATCCTTTCAATTT
GATAAGAATTTCTCGTTTTGCGTCTTTAACAAGCTGTGTCTAATATATACACACAAGTCT
CCATGTATTTTTGTTTTTCAAATATATTTTATTTGGCCTTGAAATGTTATGAATAAAAAT
TCGTTCATGCTGTCGATGTAAAACAAGTACTCTTATTTAAAAACTTGATATTTTATTTTA
TTTAATTATGCTTTATTCTTCATTTCTATTCAAATGTTAATCTTCTTTCTTATAGAACTT
ATGAATTATTTTTTAATTTTAGGTCACTTTCAGTTGGCTATAAGAATGCATATACATTAT
ATTCATTGAATTCAGTTGACCAACAACTTGAAGAAATATATTCAAACTTTGGCGATGATA
TATGTCTTGTTGAGCGTCTCTTTAGTAGCTCTCTACTTGCCATTGTGTCAATGAATGCAC
CAAGGAAATTAAAAGTATGTCACTTTAAGAAAGGAACAGAAATTTGCAATTACTCATATT
CAAACACCATCAAAACGGTCAAATTGAATCGCGCTCGTTTGGTCGTTTGCTTAGAAGAGA
GTCTTTATATTCACAATATACGCGATATGAAGGTTGTACATACAATAAGAGATACTCCAA
TAAATTCAAATGGCTTATGTGCATTGGCTGCCGATTCTGATAATTGTTATTTGGCTTATC
CAGGTTCAGGTAGAATATTAATTAAATTTTTCATAGTAAATATTGTGCAATAAAAAAAAT
TATTTTTAGC
>g9530.t6 Gene=g9530 Length=100
MNAPRKLKVCHFKKGTEICNYSYSNTIKTVKLNRARLVVCLEESLYIHNIRDMKVVHTIR
DTPINSNGLCALAADSDNCYLAYPGSGRILIKFFIVNIVQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g9530.t6 | PANTHER | PTHR11227:SF27 | WD REPEAT DOMAIN PHOSPHOINOSITIDE-INTERACTING PROTEIN 2 | 2 | 89 | 0.0e+00 |
| g9530.t6 | PANTHER | PTHR11227 | WD-REPEAT PROTEIN INTERACTING WITH PHOSPHOINOSIDES WIPI -RELATED | 2 | 89 | 0.0e+00 |
| g9530.t6 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 6 | 90 | 1.7e-06 |
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:0080025 | phosphatidylinositol-3,5-bisphosphate binding | MF |
| GO:0005515 | protein binding | MF |
| GO:0006914 | autophagy | BP |
| GO:0000407 | phagophore assembly site | CC |
| GO:0032266 | phosphatidylinositol-3-phosphate binding | MF |
| GO:0000045 | autophagosome assembly | 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. There were no conditions that were differentially expressed