Gene loci information

Transcript annotation

  • This transcript has been annotated as Sodium/potassium-transporting ATPase subunit beta-2.

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 g10319 g10319.t2 TTS g10319.t2 8907531 8907531
chr_1 g10319 g10319.t2 isoform g10319.t2 8907863 8910749
chr_1 g10319 g10319.t2 exon g10319.t2.exon1 8907863 8907966
chr_1 g10319 g10319.t2 cds g10319.t2.CDS1 8907863 8907966
chr_1 g10319 g10319.t2 exon g10319.t2.exon2 8908034 8908202
chr_1 g10319 g10319.t2 cds g10319.t2.CDS2 8908034 8908202
chr_1 g10319 g10319.t2 exon g10319.t2.exon3 8908263 8908555
chr_1 g10319 g10319.t2 cds g10319.t2.CDS3 8908263 8908555
chr_1 g10319 g10319.t2 exon g10319.t2.exon4 8908987 8909106
chr_1 g10319 g10319.t2 cds g10319.t2.CDS4 8908987 8909106
chr_1 g10319 g10319.t2 exon g10319.t2.exon5 8909175 8909315
chr_1 g10319 g10319.t2 cds g10319.t2.CDS5 8909175 8909315
chr_1 g10319 g10319.t2 exon g10319.t2.exon6 8910611 8910749
chr_1 g10319 g10319.t2 cds g10319.t2.CDS6 8910611 8910749
chr_1 g10319 g10319.t2 TSS g10319.t2 8911142 8911142

Sequences

>g10319.t2 Gene=g10319 Length=966
ATGTCTAAAGGAATAACGAATTCTCTCGAAATGGACGAGCCTTTTTATGTTCGTCGTAAG
CCAGATCCTATACCGTTCAGTAAATTTCTTTATAACAGTGATAAAGGAACAGTAATGGGA
AGAAATGGTCAATCATGGGCTAAAATCGGAATTTTCTATACAATCTTTTATGGAGTTTTG
GCTGCACTTGTTGCCGTATGTATGTGGGTATTTTTACAAACATTAGATCCTCGTATACCT
AAATGGCAATTACATGAATCTCTTATTGGAACAAACCCAGGTTTGGGTTTTCGTCCATTG
CCACCAGAGGATAATGTAGAAAGTACATTGATTTGGTATAGAGGAACCAATAAAGAGGAT
TTTAAAGTATGGACAGACGCTTTAGATGAGTTTCTGTTTCCTTATAAAACGCCTGGTTCA
ATTTCGGGTCATGGTCAAAATATTTACAATTGCGATTATGGTCAAGAACCACCAAGAGGA
CAAGTTTGTGACGTTGATATTAAAGCATGGGCACCTTGCGTTCAGGAAAACTTTTATAAT
TATCATCACAGTGCACCCTGTATTTTTCTTAAATTGAACAAAATCTTTGGTTGGATTCCA
GATTATTATAGAGATCCAAATAATTTGCCATCAAATATGCCTAAAGATCTTGTTGATCAT
ATTAATAATACTGCTGTAACTGCTCCACATACATTGAATACAATTTGGGTTTCATGTGAA
GGTGAAAATCCTGCTGATTTAGAAAATATCGGACCTGTCAAGTACTATCCTAGAAGAGGA
TTTCCTGGTTATTATTATCCATACGAAAATTCAGAAGGTTATTTATCACCTCTTGTCGCT
GTGCATTTTGAGCGACCTGTCCGTGGAATAATTATCAACGTCGAATGCAAAGCATGGGCA
AAGAACATCAAACACGACCGAGCAGATAGAATAGGATCAGTTCATTTTGAGTTGATGATT
GATTAA

>g10319.t2 Gene=g10319 Length=321
MSKGITNSLEMDEPFYVRRKPDPIPFSKFLYNSDKGTVMGRNGQSWAKIGIFYTIFYGVL
AALVAVCMWVFLQTLDPRIPKWQLHESLIGTNPGLGFRPLPPEDNVESTLIWYRGTNKED
FKVWTDALDEFLFPYKTPGSISGHGQNIYNCDYGQEPPRGQVCDVDIKAWAPCVQENFYN
YHHSAPCIFLKLNKIFGWIPDYYRDPNNLPSNMPKDLVDHINNTAVTAPHTLNTIWVSCE
GENPADLENIGPVKYYPRRGFPGYYYPYENSEGYLSPLVAVHFERPVRGIIINVECKAWA
KNIKHDRADRIGSVHFELMID

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g10319.t2 Gene3D G3DSA:2.60.40.1660 Na 18 321 3.6E-103
2 g10319.t2 PANTHER PTHR11523:SF46 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA-2 23 321 2.4E-167
3 g10319.t2 PANTHER PTHR11523 SODIUM/POTASSIUM-DEPENDENT ATPASE BETA SUBUNIT 23 321 2.4E-167
1 g10319.t2 Pfam PF00287 Sodium / potassium ATPase beta chain 26 316 1.1E-85
7 g10319.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 50 -
8 g10319.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 51 72 -
6 g10319.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 73 321 -
4 g10319.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 49 71 -

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

Pathway

  • This transcript belongs to the following 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.

Raw TPM values