General information for g10013.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 g10013 is located on chr_1: 6609461..6611456 (+ 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 | g10013 | g10013.t1 | isoform | g10013.t1 | 6609461 | 6611456 |
| chr_1 | g10013 | g10013.t1 | exon | g10013.t1.exon1 | 6609461 | 6610827 |
| chr_1 | g10013 | g10013.t1 | cds | g10013.t1.CDS1 | 6609461 | 6610827 |
| chr_1 | g10013 | g10013.t1 | exon | g10013.t1.exon2 | 6610927 | 6611012 |
| chr_1 | g10013 | g10013.t1 | cds | g10013.t1.CDS2 | 6610927 | 6611012 |
| chr_1 | g10013 | g10013.t1 | exon | g10013.t1.exon3 | 6611074 | 6611230 |
| chr_1 | g10013 | g10013.t1 | cds | g10013.t1.CDS3 | 6611074 | 6611230 |
| chr_1 | g10013 | g10013.t1 | exon | g10013.t1.exon4 | 6611288 | 6611456 |
| chr_1 | g10013 | g10013.t1 | cds | g10013.t1.CDS4 | 6611288 | 6611456 |
| chr_1 | g10013 | g10013.t1 | TSS | g10013.t1 | NA | NA |
| chr_1 | g10013 | g10013.t1 | TTS | g10013.t1 | NA | NA |
Sequences
>g10013.t1 Gene=g10013 Length=1779
ATGCTGAATTCGATTAAAAACAATTTGAATTCCTTTGCAAAAGATAGCACAATTCATGGA
GTTCATTTCATTGCCGGTGAGAATCGTAATAAAATAACCAGAATATTTTGGGCGCTTTCA
TTTATTTGTGCAACTTCAACATTCATCTTTCATGTGCATCGTTCTTATGAAAAGTGGAAA
ATAAAACCAGATATTGCTATGAGAAAACATCAAAAGTTTGTTGGTGAAATTCCCTTTCCT
GCACTCACAATCTGTTCTCCTGTTTTTGCAAAAGATAATTTTGTAGACTATGAAAATCTC
TACAGGCATTATTCATCTAATCTTGAAAGTTTTCGTAATAATATCACAAGTAAGGAAGCA
AATTATTTGATATCAAATATGCAAGCATGTAGTCCAGGTTATTTAACAATCTCAGCTCAA
GTGTTTCATCGTCATACTGATAACAATACTGTAAAGCTTCTTAATCAAAGTTCTTTTGAT
GTTGATGAGATCATGGCATCTTGTAGTTACAATAGTGTAGTGTCAGAGTGCAGTAAATTA
TTCAATCGTGTTCTTACAGACAAAGGTTTTTGTTATACATTTAATATGCAAGGATTCAGT
ACAATTTTCAATGCTGATGTTATAAGTAAAGATTTTGACTGTTATAAAAGAACAAAAATT
GCAAAGTCACCATTTTATACTGATCCATCATATAATAAACTTTTCACTGATGTAAAACCA
ACTAAAGAATGGTCATTAGATCAAGGATTTAGTACAAAACATTCTGAACATGAAATTCCT
GTTGTTGCACAAAAAGGTTTATCAATTGCTCTTTATCTTCATCACAAGAAAAAAGATGCT
GACAATCTTTGTCCTGCTTTATTTAGTGCTTTCAATTATTATTTTCATTTACCTAATGAA
ATTCTAACTCCAATGCATCTAAGACAATTTGTACCATTTGGTCAAAAAAAATTTGTATCA
TTATCAGCAAGAGCTTATAAAACAAATGAAGGACTTCGAAAACTTAAACCAAAAGTCAGA
GATTGTTATTTTGAAGGTGAAAAGAAATTGAAATTTTTCAAATCCTATACAAAAAGAAAT
TGTGAATTTGAATGTATGACAAACTATACTTTAAAAATTTGCGGTTGCTCGAAATTTTCA
ATGCCAAGAGAGCAAAATACATCAATTTGTACCGTTTATCAAGCTCGATGTTATTATATG
GCAATGAATGAATGGCCAATTTATAATAGAACTTTGAAGAAAGCAACTGAATCGTGTAAC
TGTTTGGATACTTGTACAAATATAAAATATAAAGTTAATTATGAAGAGTTGTCAGAAGAA
TCACTTCATCGACATATTGATTTAAAAGATCAAGGAATTACAGAAAAAGATGAATTTTCT
TTCTTAATTTTCACATTTGGTGATCATTTCATAATTGAAGAAGAAGATTATGCACCTTAT
GCCTTACAAAATTACACTGGCGGACTATTAGGACTTTTCATTGGCTGTTCAATTTTATCA
TTGATTGAAATCCTTTACTTTACTGTTTCAACATTGTCTATTATGTTTAAAAAAATAACT
AACTCTGAACTTGAGAAAAATGATATAAAAGTCAATGTCATTGATGTAAAACCAACAATC
TTTAAAATGCAAGAATACAATGTTGAACTTCAAAAATTTCGTTTGGAAGTGAATTATCGC
TTTAAAGATTTTCAAAGAAAAATTAATAAGAGAGATGCTGAGTTTGCTTCAGTTTTAACT
TCTATAAATAAGAAAATGAATTCTTTGAAAGAATTTTAA
>g10013.t1 Gene=g10013 Length=592
MLNSIKNNLNSFAKDSTIHGVHFIAGENRNKITRIFWALSFICATSTFIFHVHRSYEKWK
IKPDIAMRKHQKFVGEIPFPALTICSPVFAKDNFVDYENLYRHYSSNLESFRNNITSKEA
NYLISNMQACSPGYLTISAQVFHRHTDNNTVKLLNQSSFDVDEIMASCSYNSVVSECSKL
FNRVLTDKGFCYTFNMQGFSTIFNADVISKDFDCYKRTKIAKSPFYTDPSYNKLFTDVKP
TKEWSLDQGFSTKHSEHEIPVVAQKGLSIALYLHHKKKDADNLCPALFSAFNYYFHLPNE
ILTPMHLRQFVPFGQKKFVSLSARAYKTNEGLRKLKPKVRDCYFEGEKKLKFFKSYTKRN
CEFECMTNYTLKICGCSKFSMPREQNTSICTVYQARCYYMAMNEWPIYNRTLKKATESCN
CLDTCTNIKYKVNYEELSEESLHRHIDLKDQGITEKDEFSFLIFTFGDHFIIEEEDYAPY
ALQNYTGGLLGLFIGCSILSLIEILYFTVSTLSIMFKKITNSELEKNDIKVNVIDVKPTI
FKMQEYNVELQKFRLEVNYRFKDFQRKINKRDAEFASVLTSINKKMNSLKEF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g10013.t1 | Gene3D | G3DSA:1.10.287.820 | - | 335 | 425 | 5.3E-8 |
| 12 | g10013.t1 | Gene3D | G3DSA:1.10.287.770 | - | 461 | 514 | 1.1E-5 |
| 2 | g10013.t1 | PANTHER | PTHR11690:SF222 | ACID-SENSING ION CHANNEL 5 | 5 | 530 | 4.1E-54 |
| 3 | g10013.t1 | PANTHER | PTHR11690 | AMILORIDE-SENSITIVE SODIUM CHANNEL-RELATED | 5 | 530 | 4.1E-54 |
| 6 | g10013.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 34 | 51 | 3.2E-8 |
| 4 | g10013.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 75 | 91 | 3.2E-8 |
| 8 | g10013.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 356 | 367 | 3.2E-8 |
| 7 | g10013.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 367 | 384 | 3.2E-8 |
| 5 | g10013.t1 | PRINTS | PR01078 | Amiloride-sensitive sodium channel alpha-subunit signature | 487 | 503 | 3.2E-8 |
| 1 | g10013.t1 | Pfam | PF00858 | Amiloride-sensitive sodium channel | 12 | 507 | 6.9E-68 |
| 15 | g10013.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 34 | - |
| 19 | g10013.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 35 | 52 | - |
| 14 | g10013.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 53 | 72 | - |
| 18 | g10013.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 73 | 90 | - |
| 16 | g10013.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 91 | 488 | - |
| 17 | g10013.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 489 | 509 | - |
| 13 | g10013.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 510 | 592 | - |
| 10 | g10013.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 35 | 52 | - |
| 9 | g10013.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 487 | 509 | - |
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