General information for g6388.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 g6388 is located on chr_2: 16818322..16820252 (- 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 | g6388 | g6388.t1 | isoform | g6388.t1 | 16818322 | 16820252 |
| chr_2 | g6388 | g6388.t1 | exon | g6388.t1.exon1 | 16818322 | 16818499 |
| chr_2 | g6388 | g6388.t1 | cds | g6388.t1.CDS1 | 16818322 | 16818499 |
| chr_2 | g6388 | g6388.t1 | exon | g6388.t1.exon2 | 16818560 | 16818722 |
| chr_2 | g6388 | g6388.t1 | cds | g6388.t1.CDS2 | 16818560 | 16818722 |
| chr_2 | g6388 | g6388.t1 | exon | g6388.t1.exon3 | 16818777 | 16818862 |
| chr_2 | g6388 | g6388.t1 | cds | g6388.t1.CDS3 | 16818777 | 16818862 |
| chr_2 | g6388 | g6388.t1 | exon | g6388.t1.exon4 | 16818919 | 16820252 |
| chr_2 | g6388 | g6388.t1 | cds | g6388.t1.CDS4 | 16818919 | 16820252 |
| chr_2 | g6388 | g6388.t1 | TSS | g6388.t1 | NA | NA |
| chr_2 | g6388 | g6388.t1 | TTS | g6388.t1 | NA | NA |
Sequences
>g6388.t1 Gene=g6388 Length=1761
ATGTTAAGGACTATTGTAAATTATATATCCGAAGAAACTTCAGTTCATGGTTTAAAATTT
TTGGCTAATGAAAAAGTTAACAAAGCATTCAGAATTTTGTGGTCAATAATTTTACTTTTA
TCAGTCAGTGGTCTGTTTTGGTATGCAAGAGGTCTTTTTATAAAATTCTACATTGAACCA
GAAATCAACACAAGAATAAAATTGAAACCAATGAGCGAAATTCCTTTTCCTGCCGTAACA
ATTTGTGATCCTGTTTTTTCTAAAGACAATTTGACACACTATATGCAATTTCTTTATAAC
AAACGAGCAGGAATTGAACAAAATTTAACTACGAAAGAGAAAAATTATTTAGCTGCAAAC
ATTCATATTTGTGCACCTCATATGAATAAATATCTTGAAGCTCTTGACAATCGATCTGAG
ACAGATATTGTGAAATTGATTAGTGAAACTTCATTAACAACTGAAGATATTTTTATTTCG
TGTTCATTTAGGAAAACTTTGACAGAAAGTTGCAATCACATTTTCAATAAAATTTTGACA
GATTTTGGATTTTGTCATAGTGCAAATATGCAAGGTTATAACACGATTTTCAATGAGAAT
ATTTTAAGCAAAGATTTTGATTCTTACAAGAGAAAAAATATCAGCAGCACTTGGATTCAT
GATCAACCAATTCTAAATGATGACAATGAAACAATTTATTGGACACTAGATAGTGGTTAC
ATTGAAAGCAGTGATGATCTTGATTTCATTCCTAAAAGAGCAAGCAAGCAAAATTATTTT
CATAGTTATTTATTTGTGAACAATACCGATTCTGAGAATTTTTGCCCTCAGTTTGGTCAA
GTTTTTAAAGTTATTTTTCATCTTCCTAACGAGATTCCAACGATTTTTCATAAGGAATAT
ACAATAGAAATCGGTCATCAAGAAATTATGTATTTAACAGCAAAAACATACACGAGTGAT
GAAAGTTTAAGAAAGTTTTCACCCGATCAAAGACGTTGCTATTTCGAGGGTGAAAGAAGT
TTAAAATTTTTCAAGTCTTACACAAAATCTCACTGTGATTGGGAATGTGTCACTAATTAT
ACACTTGCAGTTTGTGGTTGTGTGAAGTTTTCAATGCCGAGAACAAAAGACACTCCTGTT
TGTGATATTGACAAGAAAAAATGCTATTATGATGCAATGCTTGCATGGCCTAATAATCGA
ACAGATTCTGGAAATACTTTAAGTTTCTGCAAATGTTTTCCAACATGTAATGACATAAAT
TATCAAGTTGTCTATGAAGATGGTGCTTTGTTTAACAACTATTACTCGATAGTTAATTGG
AAAAATGTTGATGATGGATTTATTGGATGCTTGCGTTTAATGTTCAAAGAACATTTAGTT
GAAGTTCATGAAAAATATGCAAGTTATAAAATTCAAAATTTTATTGCTGATTTTGGAGGA
TTATTAGGACTTTTCATGGGTTGTTCTTTGATATCAATCGTTGAAATCATATTTTTACTA
CTTCATATCTTTTCTAAATCTAATAAAATTAAAGACACTGATGTGGAACGAAAGATTATT
GAAAATAAGTTAGGAAGAATGCAAATGTTTTCTCCAAATGAAAATTATTATCGACAGCAA
TTGAATATGCAATTGCTTAGACAAGATTTTAATAAAAGTATTAAAAGATTAGAAGAGAAA
ATTGATGATTTACAGATTCAATATAATGTTGAAATATTGAGCACTATTTTGCAGTATAAG
AAAATACCGAAAAAGAATTAA
>g6388.t1 Gene=g6388 Length=586
MLRTIVNYISEETSVHGLKFLANEKVNKAFRILWSIILLLSVSGLFWYARGLFIKFYIEP
EINTRIKLKPMSEIPFPAVTICDPVFSKDNLTHYMQFLYNKRAGIEQNLTTKEKNYLAAN
IHICAPHMNKYLEALDNRSETDIVKLISETSLTTEDIFISCSFRKTLTESCNHIFNKILT
DFGFCHSANMQGYNTIFNENILSKDFDSYKRKNISSTWIHDQPILNDDNETIYWTLDSGY
IESSDDLDFIPKRASKQNYFHSYLFVNNTDSENFCPQFGQVFKVIFHLPNEIPTIFHKEY
TIEIGHQEIMYLTAKTYTSDESLRKFSPDQRRCYFEGERSLKFFKSYTKSHCDWECVTNY
TLAVCGCVKFSMPRTKDTPVCDIDKKKCYYDAMLAWPNNRTDSGNTLSFCKCFPTCNDIN
YQVVYEDGALFNNYYSIVNWKNVDDGFIGCLRLMFKEHLVEVHEKYASYKIQNFIADFGG
LLGLFMGCSLISIVEIIFLLLHIFSKSNKIKDTDVERKIIENKLGRMQMFSPNENYYRQQ
LNMQLLRQDFNKSIKRLEEKIDDLQIQYNVEILSTILQYKKIPKKN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g6388.t1 | Coils | Coil | Coil | 547 | 574 | - |
| 13 | g6388.t1 | Gene3D | G3DSA:1.10.287.770 | - | 34 | 61 | 9.7E-15 |
| 9 | g6388.t1 | Gene3D | G3DSA:2.60.470.10 | - | 62 | 193 | 9.7E-15 |
| 11 | g6388.t1 | Gene3D | G3DSA:1.10.3590.10 | - | 85 | 152 | 9.7E-15 |
| 10 | g6388.t1 | Gene3D | G3DSA:2.60.470.10 | - | 282 | 467 | 6.4E-29 |
| 12 | g6388.t1 | Gene3D | G3DSA:1.10.287.820 | - | 325 | 416 | 6.4E-29 |
| 14 | g6388.t1 | Gene3D | G3DSA:1.10.287.770 | - | 468 | 497 | 6.4E-29 |
| 2 | g6388.t1 | PANTHER | PTHR11690 | AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED | 2 | 539 | 1.4E-56 |
| 3 | g6388.t1 | PANTHER | PTHR11690:SF243 | PICKPOCKET 12-RELATED | 2 | 539 | 1.4E-56 |
| 5 | g6388.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 31 | 48 | 5.5E-11 |
| 8 | g6388.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 72 | 88 | 5.5E-11 |
| 7 | g6388.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 358 | 375 | 5.5E-11 |
| 6 | g6388.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 465 | 479 | 5.5E-11 |
| 4 | g6388.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 479 | 495 | 5.5E-11 |
| 1 | g6388.t1 | Pfam | PF00858 | Amiloride-sensitive sodium channel | 11 | 499 | 6.9E-72 |
| 17 | g6388.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 28 | - |
| 20 | g6388.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 29 | 49 | - |
| 18 | g6388.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 50 | 477 | - |
| 19 | g6388.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 478 | 501 | - |
| 16 | g6388.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 502 | 586 | - |
| 23 | g6388.t1 | ProSitePatterns | PS01206 | Amiloride-sensitive sodium channels signature. | 347 | 367 | - |
| 21 | g6388.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 32 | 54 | - |
| 22 | g6388.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 482 | 504 | - |
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.
