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.t10 TSS g11996.t10 20233096 20233096
chr_1 g11996 g11996.t10 isoform g11996.t10 20233202 20239785
chr_1 g11996 g11996.t10 exon g11996.t10.exon1 20233202 20233284
chr_1 g11996 g11996.t10 cds g11996.t10.CDS1 20233202 20233284
chr_1 g11996 g11996.t10 exon g11996.t10.exon2 20235508 20235638
chr_1 g11996 g11996.t10 cds g11996.t10.CDS2 20235508 20235638
chr_1 g11996 g11996.t10 exon g11996.t10.exon3 20237916 20238086
chr_1 g11996 g11996.t10 cds g11996.t10.CDS3 20237916 20238086
chr_1 g11996 g11996.t10 exon g11996.t10.exon4 20238155 20238244
chr_1 g11996 g11996.t10 cds g11996.t10.CDS4 20238155 20238244
chr_1 g11996 g11996.t10 exon g11996.t10.exon5 20238306 20238487
chr_1 g11996 g11996.t10 cds g11996.t10.CDS5 20238306 20238487
chr_1 g11996 g11996.t10 exon g11996.t10.exon6 20238550 20238634
chr_1 g11996 g11996.t10 cds g11996.t10.CDS6 20238550 20238634
chr_1 g11996 g11996.t10 exon g11996.t10.exon7 20238788 20238886
chr_1 g11996 g11996.t10 cds g11996.t10.CDS7 20238788 20238886
chr_1 g11996 g11996.t10 exon g11996.t10.exon8 20238949 20239785
chr_1 g11996 g11996.t10 cds g11996.t10.CDS8 20238949 20239052
chr_1 g11996 g11996.t10 TTS g11996.t10 20240584 20240584

Sequences

>g11996.t10 Gene=g11996 Length=1678
ATGACTCATGAAAGGAAACATGTTAAAGCAACGGAAAAAACTGAAATGTCTTATCTATTA
GACAAAAATGGGAAGAGTAACGGGATGGCCGATAAAAATAAACAGGGTGAATACTATTCG
AGACCAGCCAAAATGGGCAAATGGGAAGGCTTCAAACATTTTCTTTGGAATAGTGAAACT
AGTGAGCTGTTAGGACGAACAGGAGGAAGTTGGGCTAAAATTCTATTATTCTACGTACTC
TTCTATGCTGCCCTTGCCGGTTTTTTTGCTGCTATCTTTGCTGTATTTTATCAAACACTT
GATGCCAACAAACCGAAATGGCTTTTGGATAATGGTTTGATAGGCTCAAATCCCGGACTC
GGATTTCGTCCAATGCCTCCAGAGTCGAATGTAGAGAGCACACTCGTGTGGTTCGAAGCT
TCAAAAGAGTCTAACATTGAATATTGGATTTCTGCCCTTGATGAATTCTTGGAAGTTTAT
AAGAAAGAAGATCGAGAAGTCGAGAAGAATCGAATGGAATGTAATGCTCAAAATCATCCA
AAAGATGGAAAAGTTTGTCGTGTCGATGTATCACCGAATGCATTTGGCGCGTGTACAAAG
GAAAATCAGTATGGTTATGCGAAAGCCTCACCATGTATTTTCCTCAAGCTAAATAAGATT
TATGGATGGAATCCAGAATATTTTAATAGATCAAGTGAGCTGCCTTCAAAAATGCCAGAA
GATTTGCAAGAACAAATCAAGGACATACCTAAACGTGGATTCCCAGGATATTATTTCCCA
TTCATGAATCAAAAAGGTTATTTGCCACCAGTTTTGGCAATCAATTTTGAGCGTCCAAAA
ACTGGTGTACTCATTAATATTGAATGCAAAGCATGGGCACGCAACATTATGCACGACAGA
GCTGAACGTCGAGGATCAGTTCATTTTGAATTGATGGTTGATTAAAGCGCTTAAAGATAG
GGTTTCTAAATTCGTTAACAAAATGTAATAATTTTAAATCTTATTTTCAATAATTTATAA
GAAAAGCATGAAACAAAATTAAAATTTATTATCATTTATTTTACATCTTAGAAATATGAT
ATGTAGTACGATAGTTAGAAGTTTAATTCTTCATCAAATGATGACATTTTTGCTCTTAAT
TAAACATTTAAATTAAGATTTTTGCTACACGTAAAAGAAACCCATCTTGAAATTGATAAG
AGAACATATAAGAAGAGGCAATGAAGACAGTAGACGGTAGTTAGTTGGAAAGAGAAGATA
TAGTTTGATAACTGTGAGAGAAAGTGGAATGTGGTCGTTGGCAATAATAAGAATGTTTTA
GTAAAAAAAAAATAATGATTAAGAACACACACGAATGTTTTAGTTTTAAAAAATGAGGAA
GAAGATTATTAAAAATGCTAACTAACAAAAATGAAAAACAAGTAAATTATTGAGTAATTT
AGAATGAAGCAAATTGAATCCATTGCGCATTAATTAATTAAGTAAATGATAAGACAGACA
CTTATTAAATGTTAATCGATTATTAAATTATTTAAATGAGGAAAGCATGAAAAATGCAAA
ATTTGATGGCTAATTCCCACCACAACACATTATACACCATATAAACATATATTTTACCAC
TCTCCTATGAAAGTAATTATTATGATTATGTTTTTTTTATGTCTGATAAATAGGAAAA

>g11996.t10 Gene=g11996 Length=314
MTHERKHVKATEKTEMSYLLDKNGKSNGMADKNKQGEYYSRPAKMGKWEGFKHFLWNSET
SELLGRTGGSWAKILLFYVLFYAALAGFFAAIFAVFYQTLDANKPKWLLDNGLIGSNPGL
GFRPMPPESNVESTLVWFEASKESNIEYWISALDEFLEVYKKEDREVEKNRMECNAQNHP
KDGKVCRVDVSPNAFGACTKENQYGYAKASPCIFLKLNKIYGWNPEYFNRSSELPSKMPE
DLQEQIKDIPKRGFPGYYFPFMNQKGYLPPVLAINFERPKTGVLINIECKAWARNIMHDR
AERRGSVHFELMVD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g11996.t10 Gene3D G3DSA:2.60.40.1660 Na 41 314 2.9E-88
3 g11996.t10 PANTHER PTHR11523:SF46 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA-2 36 249 5.5E-103
5 g11996.t10 PANTHER PTHR11523 SODIUM/POTASSIUM-DEPENDENT ATPASE BETA SUBUNIT 36 249 5.5E-103
2 g11996.t10 PANTHER PTHR11523:SF46 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA-2 246 314 5.5E-103
4 g11996.t10 PANTHER PTHR11523 SODIUM/POTASSIUM-DEPENDENT ATPASE BETA SUBUNIT 246 314 5.5E-103
1 g11996.t10 Pfam PF00287 Sodium / potassium ATPase beta chain 45 309 5.3E-78
9 g11996.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 74 -
11 g11996.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 75 97 -
10 g11996.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 98 314 -
7 g11996.t10 ProSitePatterns PS00390 Sodium and potassium ATPases beta subunits signature 1. 51 71 -
6 g11996.t10 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

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