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 g11996 g11996.t9 TSS g11996.t9 20233096 20233096
chr_1 g11996 g11996.t9 isoform g11996.t9 20233202 20239785
chr_1 g11996 g11996.t9 exon g11996.t9.exon1 20233202 20233284
chr_1 g11996 g11996.t9 cds g11996.t9.CDS1 20233202 20233284
chr_1 g11996 g11996.t9 exon g11996.t9.exon2 20235508 20235638
chr_1 g11996 g11996.t9 cds g11996.t9.CDS2 20235508 20235638
chr_1 g11996 g11996.t9 exon g11996.t9.exon3 20237916 20238086
chr_1 g11996 g11996.t9 cds g11996.t9.CDS3 20237916 20238086
chr_1 g11996 g11996.t9 exon g11996.t9.exon4 20238155 20238244
chr_1 g11996 g11996.t9 cds g11996.t9.CDS4 20238155 20238244
chr_1 g11996 g11996.t9 exon g11996.t9.exon5 20238306 20238481
chr_1 g11996 g11996.t9 cds g11996.t9.CDS5 20238306 20238481
chr_1 g11996 g11996.t9 exon g11996.t9.exon6 20238550 20238657
chr_1 g11996 g11996.t9 cds g11996.t9.CDS6 20238550 20238657
chr_1 g11996 g11996.t9 exon g11996.t9.exon7 20238718 20238886
chr_1 g11996 g11996.t9 cds g11996.t9.CDS7 20238718 20238886
chr_1 g11996 g11996.t9 exon g11996.t9.exon8 20238949 20239785
chr_1 g11996 g11996.t9 cds g11996.t9.CDS8 20238949 20239052
chr_1 g11996 g11996.t9 TTS g11996.t9 20240584 20240584

Sequences

>g11996.t9 Gene=g11996 Length=1765
ATGACTCATGAAAGGAAACATGTTAAAGCAACGGAAAAAACTGAAATGTCTTATCTATTA
GACAAAAATGGGAAGAGTAACGGGATGGCCGATAAAAATAAACAGGGTGAATACTATTCG
AGACCAGCCAAAATGGGCAAATGGGAAGGCTTCAAACATTTTCTTTGGAATAGTGAAACT
AGTGAGCTGTTAGGACGAACAGGAGGAAGTTGGGCTAAAATTCTATTATTCTACGTACTC
TTCTATGCTGCCCTTGCCGGTTTTTTTGCTGCTATCTTTGCTGTATTTTATCAAACACTT
GATGCCAACAAACCGAAATGGCTTTTGGATAATGGTTTGATAGGCTCAAATCCCGGACTC
GGATTTCGTCCAATGCCTCCAGAGTCGAATGTAGAGAGCACACTCGTGTGGTTCGAAGCT
TCAAAAGAGTCTAACATTGAATATTGGATTTCTGCCCTTGATGAATTCTTGGAAGTTTAT
AAGAAAGAAGATCGAGAAGTCGAGAAGAATCGAATGGAATGTAATGCTCAAAATCATCCA
AAAGATGGAAAAGTTTGTCGTGTCGATGTATCACCGAATGCATTTGGCGCGTGTACAAAG
GAAAATCAGTATGGTTATGCGAAAGCCTCACCATGTATTTTCCTCAAGCTAATTTATGGA
TGGAATCCAGAATATTTTAATAGATCAAGTGAGCTGCCTTCAAAAATGCCAGAAGATTTG
CAAGAACAAATCAAGGGTATTCCAGAAGATGATAAAAATCATGAAATGATTTGGGTCTCA
TGTGAGGGTGAAAATCCTGCTGATATTGAAAATTTGGGACCTATTAACTACATACCTAAA
CGTGGATTCCCAGGATATTATTTCCCATTCATGAATCAAAAAGGTTATTTGCCACCAGTT
TTGGCAATCAATTTTGAGCGTCCAAAAACTGGTGTACTCATTAATATTGAATGCAAAGCA
TGGGCACGCAACATTATGCACGACAGAGCTGAACGTCGAGGATCAGTTCATTTTGAATTG
ATGGTTGATTAAAGCGCTTAAAGATAGGGTTTCTAAATTCGTTAACAAAATGTAATAATT
TTAAATCTTATTTTCAATAATTTATAAGAAAAGCATGAAACAAAATTAAAATTTATTATC
ATTTATTTTACATCTTAGAAATATGATATGTAGTACGATAGTTAGAAGTTTAATTCTTCA
TCAAATGATGACATTTTTGCTCTTAATTAAACATTTAAATTAAGATTTTTGCTACACGTA
AAAGAAACCCATCTTGAAATTGATAAGAGAACATATAAGAAGAGGCAATGAAGACAGTAG
ACGGTAGTTAGTTGGAAAGAGAAGATATAGTTTGATAACTGTGAGAGAAAGTGGAATGTG
GTCGTTGGCAATAATAAGAATGTTTTAGTAAAAAAAAAATAATGATTAAGAACACACACG
AATGTTTTAGTTTTAAAAAATGAGGAAGAAGATTATTAAAAATGCTAACTAACAAAAATG
AAAAACAAGTAAATTATTGAGTAATTTAGAATGAAGCAAATTGAATCCATTGCGCATTAA
TTAATTAAGTAAATGATAAGACAGACACTTATTAAATGTTAATCGATTATTAAATTATTT
AAATGAGGAAAGCATGAAAAATGCAAAATTTGATGGCTAATTCCCACCACAACACATTAT
ACACCATATAAACATATATTTTACCACTCTCCTATGAAAGTAATTATTATGATTATGTTT
TTTTTATGTCTGATAAATAGGAAAA

>g11996.t9 Gene=g11996 Length=343
MTHERKHVKATEKTEMSYLLDKNGKSNGMADKNKQGEYYSRPAKMGKWEGFKHFLWNSET
SELLGRTGGSWAKILLFYVLFYAALAGFFAAIFAVFYQTLDANKPKWLLDNGLIGSNPGL
GFRPMPPESNVESTLVWFEASKESNIEYWISALDEFLEVYKKEDREVEKNRMECNAQNHP
KDGKVCRVDVSPNAFGACTKENQYGYAKASPCIFLKLIYGWNPEYFNRSSELPSKMPEDL
QEQIKGIPEDDKNHEMIWVSCEGENPADIENLGPINYIPKRGFPGYYFPFMNQKGYLPPV
LAINFERPKTGVLINIECKAWARNIMHDRAERRGSVHFELMVD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g11996.t9 Gene3D G3DSA:2.60.40.1660 Na 41 343 1.3E-98
2 g11996.t9 PANTHER PTHR11523:SF46 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA-2 36 343 5.7E-119
3 g11996.t9 PANTHER PTHR11523 SODIUM/POTASSIUM-DEPENDENT ATPASE BETA SUBUNIT 36 343 5.7E-119
1 g11996.t9 Pfam PF00287 Sodium / potassium ATPase beta chain 45 338 1.6E-80
7 g11996.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 74 -
9 g11996.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 75 97 -
8 g11996.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 98 343 -
5 g11996.t9 ProSitePatterns PS00390 Sodium and potassium ATPases beta subunits signature 1. 51 71 -
4 g11996.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 74 96 -

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