General information for g13001.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Pickpocket protein 28.
Parent gene
- The parent gene g13001 is located on chr_1: 27436524..27438348 (- 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_1 | g13001 | g13001.t1 | isoform | g13001.t1 | 27436524 | 27438348 |
| chr_1 | g13001 | g13001.t1 | exon | g13001.t1.exon1 | 27436524 | 27436611 |
| chr_1 | g13001 | g13001.t1 | cds | g13001.t1.CDS1 | 27436524 | 27436611 |
| chr_1 | g13001 | g13001.t1 | exon | g13001.t1.exon2 | 27436670 | 27436850 |
| chr_1 | g13001 | g13001.t1 | cds | g13001.t1.CDS2 | 27436670 | 27436850 |
| chr_1 | g13001 | g13001.t1 | exon | g13001.t1.exon3 | 27436915 | 27437006 |
| chr_1 | g13001 | g13001.t1 | cds | g13001.t1.CDS3 | 27436915 | 27437006 |
| chr_1 | g13001 | g13001.t1 | exon | g13001.t1.exon4 | 27437069 | 27438348 |
| chr_1 | g13001 | g13001.t1 | cds | g13001.t1.CDS4 | 27437069 | 27438348 |
| chr_1 | g13001 | g13001.t1 | TSS | g13001.t1 | NA | NA |
| chr_1 | g13001 | g13001.t1 | TTS | g13001.t1 | NA | NA |
Sequences
>g13001.t1 Gene=g13001 Length=1641
ATGGTCGAAAGAAATTCTCTGCTTGGTTCAATAATTCAAGAGAGTTCCATTCATGGTGTT
CGTCATATAACTGACATCAAAAGAAATAAAATTTCAAGAATTCTTTGGTTCTTTTTATTT
ATTGGTTCTATGTGTGGTCTTATATTCTCAGCCTATGGTATCTATCTCAAATGGAACGTT
GAACCCGAGAGTGGTTTGCGAGTCAATTATAAACCAATGACTGAATTGCCTTTTCCATCA
GTTACAATTTGTCCACCTGTATTTGCCCATGATTATAAAGCAAATTACACACGATTTATT
GATCCTGATCCTGAAAGTCGTAAGCGAAAATTTTCTTCTATTGAACAAAATTATCTTGCT
GCAAATATTCATCGATGTTTACCAGTTATGGGTCCAATAGTAAGCAATTGTGATAACAGA
ACACGCTTCGACACTGTAAATTTAATGAGACATAGTTCAATCTGTACACAAGATTTTTTG
CGTTCATGTATTTTGGCAGAAAAACGTTATAACTGCAGTGCAATTATTAATAGAGTTCTT
ACTGACTATGGCTTTTGCTACACTTTCAATATGCAAGATTATGATGAGATTTTCAATAAT
GTCATCAGTAAAGATTTTTCATCGTATCAGAAAAGGGTAAAAAACCAAAAGAACCAATGG
AAAATGGAAGAAGGATATTTGACAACTGATGAAAAAGATGTTTTCCCTATTCGATTGAGC
AAGTCAAATACATTAAGTCTTTTATTTTACCTCTCAGAAAATGACACAATGAATAATTGC
CAAGCTATTGGTAGAGTATTCACAATCATTCTACATCAACCCAATGAAATCCCAACAGTT
TTTCATGAAGAACTTTACATTCCTTTTGGCAATCGAAAGACGGTTATTTTAACAGCGAAA
ATATTGAAAACGGCTGAATCTTTGAGAAAATATTTGCCAGAAAAACGAGGATGTTACTTT
GAGGGTGAAAGGCAATTGAAATTTTTCAAGTCATATACAAAGGCTCATTGTGATTTTGAA
TGTATGGCAAATTATACATTCAATGTTTGCGGATGCATGAAATTTTCAATGCCGAGGACT
GATGATGTTCCCATATGTGATGTCGATAAAATCAACTGCTATAGTGAAGCAATGATGGAT
TGGCCCAGGAATGCAAAGTATGAAACACCATGCGGCTGCTTGCCAACATGCAATTCAATC
AAGTACAGCGTACACTTTCAAAAGGATGCGGTTTTGGGTGAATTTTTGCAACTTCATCCG
ACTGGCGGCGAATTGCGAAGCAGCAATGGAACTTTTAGTTTTTTATACATGCGAACAAAG
AGTCATGCTGTTGATGAGTATGAGACTTTTGTTGCTTATCGTTTGCAAAATTTTATTGCC
GATCTTGGAGGGCTTTTGGGACTCTTTCTGGGTTGTAGCATTTTGTCTCTTATTGAATTA
ATTTTTTTCACTATAACTGCTATTTGGAATAAAAAGATGGGAAAAAGAAATGATATTGAA
TTTTATGCAGGAAATGTTTTAAAACAGCGATCAAATGGCGTTAAAAATATTCTTGTTCAA
CCATACAATTCAACCCAAATTACAATGGCATTTGAACACTTAAATATGGAAATGTATGCT
AACAAGCATCTGAAAAATTAG
>g13001.t1 Gene=g13001 Length=546
MVERNSLLGSIIQESSIHGVRHITDIKRNKISRILWFFLFIGSMCGLIFSAYGIYLKWNV
EPESGLRVNYKPMTELPFPSVTICPPVFAHDYKANYTRFIDPDPESRKRKFSSIEQNYLA
ANIHRCLPVMGPIVSNCDNRTRFDTVNLMRHSSICTQDFLRSCILAEKRYNCSAIINRVL
TDYGFCYTFNMQDYDEIFNNVISKDFSSYQKRVKNQKNQWKMEEGYLTTDEKDVFPIRLS
KSNTLSLLFYLSENDTMNNCQAIGRVFTIILHQPNEIPTVFHEELYIPFGNRKTVILTAK
ILKTAESLRKYLPEKRGCYFEGERQLKFFKSYTKAHCDFECMANYTFNVCGCMKFSMPRT
DDVPICDVDKINCYSEAMMDWPRNAKYETPCGCLPTCNSIKYSVHFQKDAVLGEFLQLHP
TGGELRSSNGTFSFLYMRTKSHAVDEYETFVAYRLQNFIADLGGLLGLFLGCSILSLIEL
IFFTITAIWNKKMGKRNDIEFYAGNVLKQRSNGVKNILVQPYNSTQITMAFEHLNMEMYA
NKHLKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g13001.t1 | PANTHER | PTHR11690:SF222 | ACID-SENSING ION CHANNEL 5 | 4 | 498 | 7.0E-57 |
| 3 | g13001.t1 | PANTHER | PTHR11690 | AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED | 4 | 498 | 7.0E-57 |
| 5 | g13001.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 33 | 50 | 1.0E-8 |
| 6 | g13001.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 74 | 90 | 1.0E-8 |
| 4 | g13001.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 174 | 190 | 1.0E-8 |
| 8 | g13001.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 449 | 463 | 1.0E-8 |
| 7 | g13001.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 463 | 479 | 1.0E-8 |
| 1 | g13001.t1 | Pfam | PF00858 | Amiloride-sensitive sodium channel | 13 | 483 | 7.4E-70 |
| 11 | g13001.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 33 | - |
| 15 | g13001.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 34 | 55 | - |
| 13 | g13001.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 56 | 464 | - |
| 14 | g13001.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 465 | 489 | - |
| 12 | g13001.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 490 | 546 | - |
| 10 | g13001.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 34 | 56 | - |
| 9 | g13001.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 467 | 489 | - |
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 transcript has been annotated with K03440 (acid-sensing ion channel, other)
Pathway
This gene does not belong to any pathways.
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