General information for g5803.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5803 is located on chr_2: 11991697..11992913 (+ 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 | g5803 | g5803.t1 | isoform | g5803.t1 | 11991697 | 11992913 |
| chr_2 | g5803 | g5803.t1 | exon | g5803.t1.exon1 | 11991697 | 11991897 |
| chr_2 | g5803 | g5803.t1 | cds | g5803.t1.CDS1 | 11991697 | 11991897 |
| chr_2 | g5803 | g5803.t1 | exon | g5803.t1.exon2 | 11991957 | 11992633 |
| chr_2 | g5803 | g5803.t1 | cds | g5803.t1.CDS2 | 11991957 | 11992633 |
| chr_2 | g5803 | g5803.t1 | exon | g5803.t1.exon3 | 11992685 | 11992913 |
| chr_2 | g5803 | g5803.t1 | cds | g5803.t1.CDS3 | 11992685 | 11992913 |
| chr_2 | g5803 | g5803.t1 | TSS | g5803.t1 | NA | NA |
| chr_2 | g5803 | g5803.t1 | TTS | g5803.t1 | NA | NA |
Sequences
>g5803.t1 Gene=g5803 Length=1107
ATGCAAACTTGCTTTCCTGATCAAAGTTTTTACACAATTCAACGAGTTTGTTCGAAACGA
AGTGAGAAAAATATTGTGAAATTGTTAATGGATGCAACGTATAAATACAAGTTTATAACT
TGTGAATTTCGAGATATATCATTAGGTGGTTGTGAGAAAATGTTAAGTTTAACATTAACT
GATAATGGAATTTGTCAAACTAATAGAAAAGTTGCAAAATTTCCTCATCTTGAAAGTGCT
TTCTTTAAAATTCTTGCTGATGATGATGATAATGATTGGACAATGGAAAAAGGTTATGAA
ACTGATCAAGATGAAACGTTTCCCATTAGAGCTTTGAAAAGAAATAAAATCGGCATTTAT
TACGTAATTCTCAGTAAAGAAGATGAAATTGTTTGGTTTTGCATCAAAAATGGACGTGGA
AATAAAGTTATTTTTCATTTACCAAATGAAATTCCAACATCATTGCATGATAGTCAATTT
GCTGCATTTGATCATCATAAAAAAATTAAAATTAATGCTAAAATATTTAAGATTAATCCT
GAAATGCATAGTTATCCACCAAACATTCGTCGATGTTATCTTGAGAATGAAAAAAAGTTG
AAATTTTTTAAAACTTATACACGAACACTTTGTGATTACGAGTGCATGATAAATTACACA
TTAAAAATTTGTGGCTGTGTAAAATTCTCAATGCCGCACATACCAGAGACAAAAGTTTGT
GATTTAAATAAATCAAAGTGTTTATCTGAAGCGATTAATTTATGGCCACATAATAATAGG
GATGCATTAAATGATGAAACAACTTGCAATTGTTTGGAACCTTGCAATATTATTCAATAT
TCTATGGAAATTGATAGAAACAGCGCTATGAATACAAAAACTGACGTATATCTTGAAGTT
AGTTTTGCTAAACATTTTATTGAAGAGCATACAAGCTACATCGTTTATAATTTTCAAAAT
TTTATTGCTGATTGTGGTGGTTTGATTTCAGTTGTTTTGGGATTTTCGCTATTGTCATTT
CTTGAACTTATTTTTAAATGTGTTGCGTTTTATGTTAAAATGAAGAGAGCAAATTTTAAT
CAAATCACAGCATGGAATAGTCAATGA
>g5803.t1 Gene=g5803 Length=368
MQTCFPDQSFYTIQRVCSKRSEKNIVKLLMDATYKYKFITCEFRDISLGGCEKMLSLTLT
DNGICQTNRKVAKFPHLESAFFKILADDDDNDWTMEKGYETDQDETFPIRALKRNKIGIY
YVILSKEDEIVWFCIKNGRGNKVIFHLPNEIPTSLHDSQFAAFDHHKKIKINAKIFKINP
EMHSYPPNIRRCYLENEKKLKFFKTYTRTLCDYECMINYTLKICGCVKFSMPHIPETKVC
DLNKSKCLSEAINLWPHNNRDALNDETTCNCLEPCNIIQYSMEIDRNSAMNTKTDVYLEV
SFAKHFIEEHTSYIVYNFQNFIADCGGLISVVLGFSLLSFLELIFKCVAFYVKMKRANFN
QITAWNSQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g5803.t1 | Gene3D | G3DSA:2.60.470.10 | - | 141 | 314 | 1.2E-18 |
| 6 | g5803.t1 | Gene3D | G3DSA:1.10.287.820 | - | 184 | 275 | 1.2E-18 |
| 7 | g5803.t1 | Gene3D | G3DSA:1.10.287.770 | - | 315 | 344 | 1.2E-18 |
| 2 | g5803.t1 | PANTHER | PTHR11690 | AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED | 20 | 351 | 1.8E-25 |
| 3 | g5803.t1 | PANTHER | PTHR11690:SF243 | PICKPOCKET 12-RELATED | 20 | 351 | 1.8E-25 |
| 1 | g5803.t1 | Pfam | PF00858 | Amiloride-sensitive sodium channel | 32 | 344 | 1.2E-40 |
| 9 | g5803.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 326 | - |
| 10 | g5803.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 327 | 352 | - |
| 8 | g5803.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 353 | 368 | - |
| 4 | g5803.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 328 | 350 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5803/g5803.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5803.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.
