Gene loci information

Transcript annotation

  • This transcript has been annotated as Phosphatidylinositol 5-phosphate 4-kinase type-2 alpha.

Parent gene

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_4 g16141 g16141.t1 TSS g16141.t1 8354665 8354665
chr_4 g16141 g16141.t1 isoform g16141.t1 8354740 8356285
chr_4 g16141 g16141.t1 exon g16141.t1.exon1 8354740 8354960
chr_4 g16141 g16141.t1 cds g16141.t1.CDS1 8354740 8354960
chr_4 g16141 g16141.t1 exon g16141.t1.exon2 8355017 8355397
chr_4 g16141 g16141.t1 cds g16141.t1.CDS2 8355017 8355397
chr_4 g16141 g16141.t1 exon g16141.t1.exon3 8355453 8355621
chr_4 g16141 g16141.t1 cds g16141.t1.CDS3 8355453 8355621
chr_4 g16141 g16141.t1 exon g16141.t1.exon4 8355681 8355835
chr_4 g16141 g16141.t1 cds g16141.t1.CDS4 8355681 8355835
chr_4 g16141 g16141.t1 exon g16141.t1.exon5 8355892 8355983
chr_4 g16141 g16141.t1 cds g16141.t1.CDS5 8355892 8355983
chr_4 g16141 g16141.t1 exon g16141.t1.exon6 8356041 8356105
chr_4 g16141 g16141.t1 cds g16141.t1.CDS6 8356041 8356105
chr_4 g16141 g16141.t1 exon g16141.t1.exon7 8356166 8356285
chr_4 g16141 g16141.t1 cds g16141.t1.CDS7 8356166 8356285
chr_4 g16141 g16141.t1 TTS g16141.t1 8357268 8357268

Sequences

>g16141.t1 Gene=g16141 Length=1203
ATGACAACGCCAGCAGCGAGAATCCTTAAAAAGAAGCACTTTCGCGTAAAGCATCAAAAG
GTCAAATTATTTCGTGCAAATGAGCCTCTACTGAGCGTATTCATGTGGGGCGTTAATCAC
ACAATTAACGAATTGTCACATGTAAACATTCCCGGCTTGCTCTTGCCAGATCATTTTCGT
GCTCATTCAAAAATTAAAGTTGACTATCATTTATTCAATAAAGAAAACATGCCATCACAT
TTTAAATTTAAAGAATATTGTCCACTTGTGTTCAAATATTTACGTGAACGATTTGGAATC
GATGACATTGAATATCGTGAATCATTGACACGTTCACAACCAACCTTTACAGATGATCGT
GGTAAATCGGGAGCCAAATTTTACCTGAGCTACGATAAAATGTTCATTATTAAGTCACTA
ACGAGTGAGGAAGTTGAGCGAATGCATTCATTCCTTAAACATTATCATCCATATGTGGTT
GAAAAACATGGAAATACACTCCTGCCACAATATTTGGGAATGTATAGGCTGACGTTAGAT
GGTGTGCAGTATTACTTTAAAGTTATGAGGAATGTGTTCAGTCCACATTTTAGGATTCAT
CAGAAATTTGACCTCAAAGGTTCAACAGTCGATCGTGAAGCATCCGACAAAGAACTTGAC
AAATCGTTACCAACACTCAAAGACAATGATTTCATTAAACAGGGCATCAGAATTAAAATT
GGTCCAGAGGCTAAAGAAAAATTCAATGCAACACTCACTGCTGATGTTGAATTCCTATTA
AAACTTCATTTAATGGATTATTCATTACTGATTGGTATTCATGATGTGCGGCAAGCAGCA
GAAGATGCTGAAGCACGTGGTGATGGAAATCGAAGTGATCCACATCATGACAGTGAAAGT
GAAAATGAATATGATAGTGGAGAAAGATGGGAAAATACACCACCAGATTCACCTCGTCAA
GCTGATGCTCATGTTATAAATCCAGACATTGACGTTTATGCTGTTGCAAGTCAAGAAGAA
AATCAATTTATTTATTTCATGGCGATAATTGATCCATTGACGAATTATGGATTAAAAAAA
CAAGCAGCCAAAGCAGCAAAGACAGTGAAATATGGAAGCAATGTTGATGGAATAAGCACC
TGTGATCCGGAACAGTACGCCAAGCGATTCCTTGAGTTCATAAATGATAAAGTCATTGAA
TAA

>g16141.t1 Gene=g16141 Length=400
MTTPAARILKKKHFRVKHQKVKLFRANEPLLSVFMWGVNHTINELSHVNIPGLLLPDHFR
AHSKIKVDYHLFNKENMPSHFKFKEYCPLVFKYLRERFGIDDIEYRESLTRSQPTFTDDR
GKSGAKFYLSYDKMFIIKSLTSEEVERMHSFLKHYHPYVVEKHGNTLLPQYLGMYRLTLD
GVQYYFKVMRNVFSPHFRIHQKFDLKGSTVDREASDKELDKSLPTLKDNDFIKQGIRIKI
GPEAKEKFNATLTADVEFLLKLHLMDYSLLIGIHDVRQAAEDAEARGDGNRSDPHHDSES
ENEYDSGERWENTPPDSPRQADAHVINPDIDVYAVASQEENQFIYFMAIIDPLTNYGLKK
QAAKAAKTVKYGSNVDGISTCDPEQYAKRFLEFINDKVIE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g16141.t1 CDD cd17305 PIPKc_PIP5KII 29 394 0.0
6 g16141.t1 Gene3D G3DSA:3.30.800.10 Phosphatidylinositol Phosphate Kinase II Beta 12 191 3.4E-67
5 g16141.t1 Gene3D G3DSA:3.30.810.10 - 192 398 1.3E-53
9 g16141.t1 MobiDBLite mobidb-lite consensus disorder prediction 282 319 -
10 g16141.t1 MobiDBLite mobidb-lite consensus disorder prediction 282 312 -
2 g16141.t1 PANTHER PTHR23086:SF21 PHOSPHATIDYLINOSITOL 5-PHOSPHATE 4-KINASE TYPE-2 ALPHA 9 396 1.2E-145
3 g16141.t1 PANTHER PTHR23086 PHOSPHATIDYLINOSITOL-4-PHOSPHATE 5-KINASE 9 396 1.2E-145
1 g16141.t1 Pfam PF01504 Phosphatidylinositol-4-phosphate 5-Kinase 119 396 6.0E-74
11 g16141.t1 ProSiteProfiles PS51455 Phosphatidylinositol phosphate kinase (PIPK) domain profile. 26 398 65.152
8 g16141.t1 SMART SM00330 PIPK_2 55 399 6.0E-106
4 g16141.t1 SUPERFAMILY SSF56104 SAICAR synthase-like 24 398 6.54E-111

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:0016307 phosphatidylinositol phosphate kinase activity MF
GO:0046488 phosphatidylinositol metabolic process BP

KEGG

Orthology

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.

Raw TPM values