General information for g16476.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g16476 is located on chr_4: 9638906..9640490 (- 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 | g16476 | g16476.t1 | isoform | g16476.t1 | 9638906 | 9640490 |
| chr_4 | g16476 | g16476.t1 | exon | g16476.t1.exon1 | 9638906 | 9639095 |
| chr_4 | g16476 | g16476.t1 | cds | g16476.t1.CDS1 | 9638906 | 9639095 |
| chr_4 | g16476 | g16476.t1 | exon | g16476.t1.exon2 | 9639145 | 9640490 |
| chr_4 | g16476 | g16476.t1 | cds | g16476.t1.CDS2 | 9639145 | 9640490 |
| chr_4 | g16476 | g16476.t1 | TSS | g16476.t1 | NA | NA |
| chr_4 | g16476 | g16476.t1 | TTS | g16476.t1 | NA | NA |
Sequences
>g16476.t1 Gene=g16476 Length=1536
ATGACAAAAGTCATAAAAGCTCTAACAGATGAGCAATTCATCAATTTATTTTTTAAATCA
AGCACAAGTTCAAATAAAATTATTAAATTTTGTTGGATTTCTATGACAATTCTTTCATTT
ACTGGATTAATTTTTTACACTTATGGAATTTACAAGAAATGGAACATTTCACCTGACATT
GGCTTCACAATTCGTAAAGTTTTATCACATAACATTCCAATGCCAGCTATAACAATTTGT
GACTCAATTTATCCAGAACAAATTCAAATAGATTTGCCAGTTCATGAATACATTTATCAA
TACGGAATTGGAACAAAATTGCCATCACTGACAAGTGAAGAACAAAATTATCTTGCTTTG
GTCATGAACACTTGTGGACCTCACAAATTATCTCATATGGCACAAAATATTTGCACAAAT
CGAACTGAAAAAAATTTGATAAAATTATTGAAAAATGCCAAACACAAAACGTTTTTTGAT
ATTTGTGAATTTCGTGAATTTAAATTTGTAAATTGTCGTAAATTTTTAAGTCGATCATTG
ACAGATTTTGGAATTTGTGACACAATCAACATTCAAGGTTTCAACGAACTTTTTAATAAA
GACGCAATAAGTGAAGATTTTGAAATTTTTCGTCGAAGTGAAATTTCAAAATTTCCTGAC
CCTGAAAGTCCTTTGTTTAATGTCAGCATTGATGATAATTTCGATGAAATCATTTGGTCA
CTTGAAAATGGTTACAAAAATAACGATGATGAAGTTTTACCAATTCGTGCATTAAAACGT
AATAAAATTGGTGTTGAAATGTTTTTTACAAAAGAAAATGCAAGGAATACAAACATGTGG
TTTTGTCGATTGATGGGACGAGGTTATAAAATTTTTATTCATTTACCAAATGAAGTTCCA
ACATTTTTACATAAGAAACATTTTCTTGAATACAATACAAACAGATCTTTTACGGTTTCA
GCAAAAATTTATAAAACAAGTAAAGATTTGCAAGGTTATTCACCAAAAGTGCGAGGTTGT
TACTTTGAAGGTGAAAAAGTTTTGAAATTTTTTAAATCTTACACAAAAACTCTTTGTGAT
TTTGAATGCATGACAAATTACACCTTGAAAATTTGTGGATGTGTGAAATTTTCAATGCCA
AGAACACAAGATACGCCAATTTGTGATTTAGATAAAGTTGAATGCTATAACAATGCAATG
ATTACCTGGCCAAATGTTAATGATGAAAATGAACTTAGTGATGCTTCATCAACTTGTGAT
TGTCTTGATTCATGCACAAATATTGAATATGATGTTAAAATAGAGAAAACTAATGCTGTT
TATTTACCAAGTCAACATGGATTTCTGAAAACTTATTCAATTTTTACTGTGGAATTTTCA
TCACATATAATTGAGGAAAATATCAATTATATTGGTTATACATTTCAAAATTTTGTAGCA
GACTGTGGTGGCTTAATTGGACTTTTCTTGGGATTTTCATTGCTTTCAATTTTTGAAGTT
TTTTATCGAACATTGAATGCATTTTTAAAATTGTAA
>g16476.t1 Gene=g16476 Length=511
MTKVIKALTDEQFINLFFKSSTSSNKIIKFCWISMTILSFTGLIFYTYGIYKKWNISPDI
GFTIRKVLSHNIPMPAITICDSIYPEQIQIDLPVHEYIYQYGIGTKLPSLTSEEQNYLAL
VMNTCGPHKLSHMAQNICTNRTEKNLIKLLKNAKHKTFFDICEFREFKFVNCRKFLSRSL
TDFGICDTINIQGFNELFNKDAISEDFEIFRRSEISKFPDPESPLFNVSIDDNFDEIIWS
LENGYKNNDDEVLPIRALKRNKIGVEMFFTKENARNTNMWFCRLMGRGYKIFIHLPNEVP
TFLHKKHFLEYNTNRSFTVSAKIYKTSKDLQGYSPKVRGCYFEGEKVLKFFKSYTKTLCD
FECMTNYTLKICGCVKFSMPRTQDTPICDLDKVECYNNAMITWPNVNDENELSDASSTCD
CLDSCTNIEYDVKIEKTNAVYLPSQHGFLKTYSIFTVEFSSHIIEENINYIGYTFQNFVA
DCGGLIGLFLGFSLLSIFEVFYRTLNAFLKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g16476.t1 | Gene3D | G3DSA:1.10.287.770 | - | 30 | 58 | 2.9E-6 |
| 8 | g16476.t1 | Gene3D | G3DSA:2.60.470.10 | - | 60 | 192 | 2.9E-6 |
| 10 | g16476.t1 | Gene3D | G3DSA:1.10.3590.10 | - | 83 | 155 | 2.9E-6 |
| 7 | g16476.t1 | Gene3D | G3DSA:2.60.470.10 | - | 264 | 471 | 1.2E-30 |
| 9 | g16476.t1 | Gene3D | G3DSA:1.10.3590.10 | - | 272 | 288 | 1.2E-30 |
| 11 | g16476.t1 | Gene3D | G3DSA:1.10.287.820 | - | 332 | 425 | 1.2E-30 |
| 12 | g16476.t1 | Gene3D | G3DSA:1.10.287.770 | - | 472 | 501 | 1.2E-30 |
| 2 | g16476.t1 | PANTHER | PTHR11690:SF222 | ACID-SENSING ION CHANNEL 5 | 26 | 503 | 7.2E-37 |
| 3 | g16476.t1 | PANTHER | PTHR11690 | AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED | 26 | 503 | 7.2E-37 |
| 1 | g16476.t1 | Pfam | PF00858 | Amiloride-sensitive sodium channel | 23 | 502 | 6.7E-57 |
| 14 | g16476.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 26 | - |
| 18 | g16476.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 27 | 48 | - |
| 16 | g16476.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 49 | 482 | - |
| 17 | g16476.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 483 | 502 | - |
| 15 | g16476.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 503 | 511 | - |
| 6 | g16476.t1 | ProSitePatterns | PS01206 | Amiloride-sensitive sodium channels signature. | 354 | 374 | - |
| 5 | g16476.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 28 | 50 | - |
| 4 | g16476.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 483 | 502 | - |
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