General information for g9929.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phosphatidylinositol 4-kinase type 2-beta.
Parent gene
- The parent gene g9929 is located on chr_1: 6065568..6067134 (+ 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 | g9929 | g9929.t4 | TSS | g9929.t4 | 6063791 | 6063791 |
| chr_1 | g9929 | g9929.t4 | isoform | g9929.t4 | 6063886 | 6065853 |
| chr_1 | g9929 | g9929.t4 | exon | g9929.t4.exon1 | 6063886 | 6064039 |
| chr_1 | g9929 | g9929.t4 | cds | g9929.t4.CDS1 | 6063886 | 6064039 |
| chr_1 | g9929 | g9929.t4 | exon | g9929.t4.exon2 | 6064200 | 6064244 |
| chr_1 | g9929 | g9929.t4 | cds | g9929.t4.CDS2 | 6064200 | 6064244 |
| chr_1 | g9929 | g9929.t4 | exon | g9929.t4.exon3 | 6064313 | 6064387 |
| chr_1 | g9929 | g9929.t4 | cds | g9929.t4.CDS3 | 6064313 | 6064387 |
| chr_1 | g9929 | g9929.t4 | exon | g9929.t4.exon4 | 6064615 | 6065365 |
| chr_1 | g9929 | g9929.t4 | cds | g9929.t4.CDS4 | 6064615 | 6065365 |
| chr_1 | g9929 | g9929.t4 | exon | g9929.t4.exon5 | 6065427 | 6065702 |
| chr_1 | g9929 | g9929.t4 | cds | g9929.t4.CDS5 | 6065427 | 6065702 |
| chr_1 | g9929 | g9929.t4 | exon | g9929.t4.exon6 | 6065769 | 6065853 |
| chr_1 | g9929 | g9929.t4 | cds | g9929.t4.CDS6 | 6065769 | 6065853 |
| chr_1 | g9929 | g9929.t4 | TTS | g9929.t4 | NA | NA |
Sequences
>g9929.t4 Gene=g9929 Length=1386
ATGGAAAAATTGATAGAAGACTTAAATTTATCAACATTAGATGATGGTGCGGATTTGTTT
AAAATATCTTTATCACCAGAACATTGTAGAATCCCTTTAACTCAACCAATCGATGAAATG
TATTCAGCTAGTGAAAATTTGAATAATAATTTAGATGATCCACATTTTAGTGACCTCGTT
TATCAAGCTGAAATAGTAAATGCTGGCATCTATCCAGAAAGAATATATCAAGGAAGTAGC
GGTTCTTATTTCGTAAAAAATCCTGCAAATGTAACTGTATTTAAACCCAAAGATGAAGAG
CCGTACGGTCGATTAAATCCAAAATGGACAAAACTATTTCACAAACTCTGTTGTCCCTGT
TGTTTTGGAAGAGCTTGCTTGATACCGAATCAGGGATATTTGAGTGAGGCTGGAGCGAGT
TTAGTTGATATTAAATTAAACTTGCAGATAGTTCCAAAGACAAGAGTTGTAAGACTAGTC
TCCGAAACTTTCAATTATCCTCGAATTGATCGTCAAAAGGCAAGAATAAAAAGGACGATC
AAAGAAAGAATGCCTGCAGCACGATTCAAAAGAATGACTTTACCACCAAAAACAGGATCT
TTTCAGCTTTTCGTAGATGGATATAAAGATGCAGATCACTGGTTAAGACGTTTTGAACAA
GAACCACTCTCACCGAAAGTTGCTCAAAAATTTCAATATCAATTTGAAAGACTCGTTGTT
TTAGATTATATCATACGCAACACAGATCGAGGTAATGATAATTGGCTAATAAAATATGAT
CAACCATCAGTAAATCATTCGAAAAATGGAAGTATGAATGGAAGTGCAAATTCTATTAAT
AATAATTTTATCACACTCACTACACCAACTAATAACATTCCCAATGGATTAAGTCATAGT
AACAGTTCTGGATCGTTTCATAAAGATGATGATAGTTGGAATGTTGTAGATCTACCCGAA
ATTAGAATAGCCGCTATCGATAATGGTTTAGCTTTTCCATTTAAGCATCCAGACTCTTGG
AGAGCTTATCCTTACCATTGGGCGTGGTTACCACAGGCTAAGGTTCCTTTTAGTCAAGAG
ATCAAAGATTTAGTTCTTCCTCTATTGTCCGATTTAAATTTTGTTGAAGAATTGTGCAAT
GATCTATTAGAATTGTTTAGGCAAGATAAAGGTTTTGATAGAGGTTTATTTGAAAAACAA
ATGTCAGTGATGCGTGGTCAAATTCTAAATTTAACTCAAGCACTAAAAGATGGAAAGAGC
CCAGTACAACTCGTTCAAATGCCTGCAGTGATTGTTGAAAGATCAAAAATAAATCAAGAA
GCATCACGATTCGGATCTTTTAAACAGCGATTTCAAAATAAAAGTCCTTTCTTCAGCTGG
TGCTGA
>g9929.t4 Gene=g9929 Length=461
MEKLIEDLNLSTLDDGADLFKISLSPEHCRIPLTQPIDEMYSASENLNNNLDDPHFSDLV
YQAEIVNAGIYPERIYQGSSGSYFVKNPANVTVFKPKDEEPYGRLNPKWTKLFHKLCCPC
CFGRACLIPNQGYLSEAGASLVDIKLNLQIVPKTRVVRLVSETFNYPRIDRQKARIKRTI
KERMPAARFKRMTLPPKTGSFQLFVDGYKDADHWLRRFEQEPLSPKVAQKFQYQFERLVV
LDYIIRNTDRGNDNWLIKYDQPSVNHSKNGSMNGSANSINNNFITLTTPTNNIPNGLSHS
NSSGSFHKDDDSWNVVDLPEIRIAAIDNGLAFPFKHPDSWRAYPYHWAWLPQAKVPFSQE
IKDLVLPLLSDLNFVEELCNDLLELFRQDKGFDRGLFEKQMSVMRGQILNLTQALKDGKS
PVQLVQMPAVIVERSKINQEASRFGSFKQRFQNKSPFFSWC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g9929.t4 | PANTHER | PTHR12865 | PHOSPHATIDYLINOSITOL 4-KINASE TYPE-II | 41 | 268 | 0 |
| 5 | g9929.t4 | PANTHER | PTHR12865:SF6 | PHOSPHATIDYLINOSITOL 4-KINASE TYPE 2-BETA | 41 | 268 | 0 |
| 2 | g9929.t4 | PANTHER | PTHR12865 | PHOSPHATIDYLINOSITOL 4-KINASE TYPE-II | 304 | 459 | 0 |
| 4 | g9929.t4 | PANTHER | PTHR12865:SF6 | PHOSPHATIDYLINOSITOL 4-KINASE TYPE 2-BETA | 304 | 459 | 0 |
| 1 | g9929.t4 | Pfam | PF00454 | Phosphatidylinositol 3- and 4-kinase | 78 | 410 | 0 |
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:0004430 | 1-phosphatidylinositol 4-kinase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K13711 (phosphatidylinositol 4-kinase type 2)
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.
