General information for g15754.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Sorting nexin-3.
Parent gene
- The parent gene g15754 is located on chr_4: 6669147..6669713 (- 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_4 | g15754 | g15754.t10 | TTS | g15754.t10 | 6669009 | 6669009 |
| chr_4 | g15754 | g15754.t10 | isoform | g15754.t10 | 6669147 | 6669713 |
| chr_4 | g15754 | g15754.t10 | exon | g15754.t10.exon1 | 6669147 | 6669306 |
| chr_4 | g15754 | g15754.t10 | cds | g15754.t10.CDS1 | 6669269 | 6669306 |
| chr_4 | g15754 | g15754.t10 | exon | g15754.t10.exon2 | 6669383 | 6669473 |
| chr_4 | g15754 | g15754.t10 | cds | g15754.t10.CDS2 | 6669383 | 6669473 |
| chr_4 | g15754 | g15754.t10 | exon | g15754.t10.exon3 | 6669534 | 6669713 |
| chr_4 | g15754 | g15754.t10 | cds | g15754.t10.CDS3 | 6669534 | 6669713 |
| chr_4 | g15754 | g15754.t10 | TSS | g15754.t10 | 6669650 | 6669650 |
Sequences
>g15754.t10 Gene=g15754 Length=431
ATGAATTCACCCGAAGAAAATTTCGAGAACAATTCAATATCTCGATTAGCCACAAAAAAG
CAAAGTTTAGATGACATGTATTCAGTGCCAGCTAATTTCTTAGAAATTGATGTTGTCAAT
CCACAGACAAAAATTATAGCTGGAAAAAAGAAGTATACAGATTATGAGATTCGTATGAAG
ACTAATCTTCCAGTTTTCAAAATAAAAGAATCCAGCGTTCGTCGTCGTTATTCAGACTTT
GAATGGCTTCGTAATGAACTTGAACGTGACATGATGAGAATTTTATTGAAGAAAGAAGAA
AAGGACTAGAAATTTTTGTTAACAAAATCGCAGGGCATCCGCTTGCACAGAATGAGAGAT
GTTTGCATATGTTCTTACAAGAACCTGTTATTGATCGAGGTTACACACCTGGTAAAGTAA
GAAATGCTTAA
>g15754.t10 Gene=g15754 Length=102
MNSPEENFENNSISRLATKKQSLDDMYSVPANFLEIDVVNPQTKIIAGKKKYTDYEIRMK
TNLPVFKIKESSVRRRYSDFEWLRNELERDMMRILLKKEEKD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g15754.t10 | Gene3D | G3DSA:3.30.1520.10 | PX domain | 27 | 102 | 0.0000000 |
| 2 | g15754.t10 | PANTHER | PTHR45963 | RE52028P | 11 | 94 | 0.0000000 |
| 1 | g15754.t10 | Pfam | PF00787 | PX domain | 65 | 95 | 0.0000099 |
| 5 | g15754.t10 | ProSiteProfiles | PS50195 | PX domain profile. | 33 | 102 | 9.1010000 |
| 3 | g15754.t10 | SUPERFAMILY | SSF64268 | PX domain | 31 | 90 | 0.0000000 |
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:0035091 | phosphatidylinositol binding | MF |
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