Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Sodium/potassium-transporting ATPase subunit beta.

Parent gene

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 g11996 g11996.t14 isoform g11996.t14 20235145 20238378
chr_1 g11996 g11996.t14 exon g11996.t14.exon1 20235145 20235638
chr_1 g11996 g11996.t14 TSS g11996.t14 20235169 20235169
chr_1 g11996 g11996.t14 cds g11996.t14.CDS1 20235509 20235638
chr_1 g11996 g11996.t14 exon g11996.t14.exon2 20237916 20238086
chr_1 g11996 g11996.t14 cds g11996.t14.CDS2 20237916 20238086
chr_1 g11996 g11996.t14 exon g11996.t14.exon3 20238155 20238244
chr_1 g11996 g11996.t14 cds g11996.t14.CDS3 20238155 20238244
chr_1 g11996 g11996.t14 exon g11996.t14.exon4 20238306 20238378
chr_1 g11996 g11996.t14 cds g11996.t14.CDS4 20238306 20238376
chr_1 g11996 g11996.t14 TTS g11996.t14 NA NA

Sequences

>g11996.t14 Gene=g11996 Length=828
ATGTCAGACAGAACTTCAGCAATTCAGTTGGCTGTTGTGTGTTGTGTTCATCGGATCTTA
ACAAACTAACAAGAACAAGCGTGAGAGAGAATCCATATTTAACGGAAAGAGAGGATTTTT
AGTGTGGCGTTTGTTGGGAATAAAAAGAAATTTTTGTGGAAAAGGAAAATTGCATCATCA
TCAGAAGAAGAAAATTTATTTTATTAAGCTAGTGAATACGTTTGATTAATTTCTCTCGTG
CAAAAAGAAAGCTTTAAAATTCATTCTAAATAATATTTTAACATTCTCTTCATTCTTGCG
CTCTTGTCGTGCTATACAAGCGATATTTTATTCATATATTATAAAATTTAAAAACAATTA
AAGGATGGCCGATAAAAATAAACAGGGTGAATACTATTCGAGACCAGCCAAAATGGGCAA
ATGGGAAGGCTTCAAACATTTTCTTTGGAATAGTGAAACTAGTGAGCTGTTAGGACGAAC
AGGAGGAAGTTGGGCTAAAATTCTATTATTCTACGTACTCTTCTATGCTGCCCTTGCCGG
TTTTTTTGCTGCTATCTTTGCTGTATTTTATCAAACACTTGATGCCAACAAACCGAAATG
GCTTTTGGATAATGGTTTGATAGGCTCAAATCCCGGACTCGGATTTCGTCCAATGCCTCC
AGAGTCGAATGTAGAGAGCACACTCGTGTGGTTCGAAGCTTCAAAAGAGTCTAACATTGA
ATATTGGATTTCTGCCCTTGATGAATTCTTGGAAGTTTATAAGAAAGAAGATCGAGAAGT
CGAGAAGAATCGAATGGAATGTAATGCTCAAAATCATCCAAAAGATGG

>g11996.t14 Gene=g11996 Length=154
MADKNKQGEYYSRPAKMGKWEGFKHFLWNSETSELLGRTGGSWAKILLFYVLFYAALAGF
FAAIFAVFYQTLDANKPKWLLDNGLIGSNPGLGFRPMPPESNVESTLVWFEASKESNIEY
WISALDEFLEVYKKEDREVEKNRMECNAQNHPKD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g11996.t14 Gene3D G3DSA:2.60.40.1660 Na 13 154 2.3E-41
2 g11996.t14 PANTHER PTHR11523:SF46 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA-2 8 150 5.7E-39
3 g11996.t14 PANTHER PTHR11523 SODIUM/POTASSIUM-DEPENDENT ATPASE BETA SUBUNIT 8 150 5.7E-39
1 g11996.t14 Pfam PF00287 Sodium / potassium ATPase beta chain 17 149 6.9E-41
8 g11996.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 46 -
9 g11996.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 47 69 -
7 g11996.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 70 154 -
5 g11996.t14 ProSitePatterns PS00390 Sodium and potassium ATPases beta subunits signature 1. 23 43 -
4 g11996.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 46 68 -

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:0006813 potassium ion transport BP
GO:0005890 sodium:potassium-exchanging ATPase complex CC
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.

Raw TPM values