General information for g5118.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5118 is located on chr_2: 7094599..7098127 (+ 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_2 | g5118 | g5118.t1 | isoform | g5118.t1 | 7094599 | 7098127 |
| chr_2 | g5118 | g5118.t1 | exon | g5118.t1.exon1 | 7094599 | 7094622 |
| chr_2 | g5118 | g5118.t1 | cds | g5118.t1.CDS1 | 7094599 | 7094622 |
| chr_2 | g5118 | g5118.t1 | exon | g5118.t1.exon2 | 7097378 | 7097619 |
| chr_2 | g5118 | g5118.t1 | cds | g5118.t1.CDS2 | 7097378 | 7097619 |
| chr_2 | g5118 | g5118.t1 | exon | g5118.t1.exon3 | 7097803 | 7098127 |
| chr_2 | g5118 | g5118.t1 | cds | g5118.t1.CDS3 | 7097803 | 7098127 |
| chr_2 | g5118 | g5118.t1 | TSS | g5118.t1 | NA | NA |
| chr_2 | g5118 | g5118.t1 | TTS | g5118.t1 | NA | NA |
Sequences
>g5118.t1 Gene=g5118 Length=591
ATGTCAGTTAAAACCACGGAAGATAAAACAAGACTTACAACGTCAATAGATAGTCTTGAA
TTTGATGCAATTGGTGCTGATACTTTCTTCAGAAATGTCGTAAATACTAAAGTTCATGGA
TATTTAATGTTCTTACATGATCCTTATGAATTGCCATCAAAATTATCACAACAAATTGAC
ATCAACATGGATCATGACTTTAATATTTTTGTTGATCCACAAATAAATGCTATAGATGAT
TCTCTTATCGATTTTGAGCCACACGAACGAAATTGTTATCTCGATGATGAGCACAAATTA
AAGTTCTTCAAAGTCTACACGAGAATAAATTGTGAGGCAGAATGTTTGACAAATTTTATG
ATTTCTCGTTGTGATTGCGTTGAATTTTTTATGATTCAAAATTCAACAACGCGAATTTGT
TCAGCAAGTGAAAAAAGATGCTTTGACAAAGCCAGAAATTCTTTTGAAGATTATCGCAGC
TCATGCAAATGCCTTCAGCCATGCGACTATGTAAATTACTATCTCACAATTGACTCAAAA
AAGAGGCATCGCACAGTTTTCTATAAAAATTGTATAAGATATCAAATTTAA
>g5118.t1 Gene=g5118 Length=196
MSVKTTEDKTRLTTSIDSLEFDAIGADTFFRNVVNTKVHGYLMFLHDPYELPSKLSQQID
INMDHDFNIFVDPQINAIDDSLIDFEPHERNCYLDDEHKLKFFKVYTRINCEAECLTNFM
ISRCDCVEFFMIQNSTTRICSASEKRCFDKARNSFEDYRSSCKCLQPCDYVNYYLTIDSK
KRHRTVFYKNCIRYQI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g5118.t1 | Gene3D | G3DSA:1.10.287.820 | - | 85 | 168 | 1.7E-9 |
| 2 | g5118.t1 | PANTHER | PTHR11690 | AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED | 35 | 177 | 4.2E-19 |
| 3 | g5118.t1 | PANTHER | PTHR11690:SF243 | PICKPOCKET 12-RELATED | 35 | 177 | 4.2E-19 |
| 1 | g5118.t1 | Pfam | PF00858 | Amiloride-sensitive sodium channel | 36 | 181 | 4.2E-24 |
| 4 | g5118.t1 | ProSitePatterns | PS01206 | Amiloride-sensitive sodium channels signature. | 106 | 126 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5118/g5118.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5118.t1.fa.iupred3.txt does not exist
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