General information for g1490.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g1490 is located on chr_3: 11364063..11364863 (+ 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_3 | g1490 | g1490.t1 | isoform | g1490.t1 | 11364063 | 11364863 |
| chr_3 | g1490 | g1490.t1 | exon | g1490.t1.exon1 | 11364063 | 11364863 |
| chr_3 | g1490 | g1490.t1 | cds | g1490.t1.CDS1 | 11364063 | 11364863 |
| chr_3 | g1490 | g1490.t1 | TSS | g1490.t1 | NA | NA |
| chr_3 | g1490 | g1490.t1 | TTS | g1490.t1 | NA | NA |
Sequences
>g1490.t1 Gene=g1490 Length=801
ATGATCAACCAATTTTCAATGCCAGAAATTCCATTTCAAAATTATCCATTAAAAATTGAT
CTCAAAAGTCATTCAAAATTTACGTTAAAAATCAAACAACAAAAATTTCAAAATCCTAAC
ATGAAGGTTTGCACTGGAATGTCTTTGAGAGTTCATTTACCAAATGAACTGCCACAATTT
GAAAATTTTGAGTCTTTTGGAGAAATTAAAAATTCAATGGATGTTGAAGTTACACCAGAA
ATTACAAAAACTGATGAAAGTTTGAGAATTTTAAGTCCAGAAGAGCGAGAATGTTATTTT
GAAAATGAAAGAAAATTAAAATATTTTAAAATTTACACTGAAGAATATTGTAAAATGGAA
TGCATTATTGATTATGCAATTTGGTATTGCAAATGCATTTCTCCACAATTCATTCATGGA
AAGAATCATGAAAAACTTGATTTTTGTCAATCTGAACAATTCAGTTGTGTTGGAATTAGT
CGCAATTATTATTTTATGTACTACAATAAAATGTTAGATGAAAACTGCACTTGCTTGCCG
ACATGTAATTCGTTAAGTTATCATTTAAAATATTATCCAAAAAGTGATGAAAAAGATTCA
ATTATCATCAATGTAAAAATGAACACAGATCAATTGATTTTATATCGAAGATTTCAACTT
TTTACTTTTTCTGACGCTGTTTCTTATGTTGGTGGATTGCTTGGACTTTTTGCAGGAATT
TCAATGCTTTCGATTGTTGAAATTTTTTATTTTTTTAGTTTGAGAATTTTTGTGAACATT
TGTATAAAATTTCGACAATAA
>g1490.t1 Gene=g1490 Length=266
MINQFSMPEIPFQNYPLKIDLKSHSKFTLKIKQQKFQNPNMKVCTGMSLRVHLPNELPQF
ENFESFGEIKNSMDVEVTPEITKTDESLRILSPEERECYFENERKLKYFKIYTEEYCKME
CIIDYAIWYCKCISPQFIHGKNHEKLDFCQSEQFSCVGISRNYYFMYYNKMLDENCTCLP
TCNSLSYHLKYYPKSDEKDSIIINVKMNTDQLILYRRFQLFTFSDAVSYVGGLLGLFAGI
SMLSIVEIFYFFSLRIFVNICIKFRQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g1490.t1 | Gene3D | G3DSA:1.10.287.770 | - | 199 | 258 | 2.8E-6 |
| 2 | g1490.t1 | PANTHER | PTHR11690 | AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED | 29 | 261 | 6.4E-30 |
| 3 | g1490.t1 | PANTHER | PTHR11690:SF240 | PICKPOCKET 18-RELATED | 29 | 261 | 6.4E-30 |
| 1 | g1490.t1 | Pfam | PF00858 | Amiloride-sensitive sodium channel | 26 | 251 | 6.0E-35 |
| 6 | g1490.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 225 | - |
| 8 | g1490.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 226 | 252 | - |
| 7 | g1490.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 253 | 266 | - |
| 4 | g1490.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 230 | 252 | - |
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:0016020 | membrane | CC |
| GO:0005272 | sodium channel activity | MF |
| GO:0006814 | sodium ion transport | 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