Gene loci information

Transcript annotation

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

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_3 g1887 g1887.t6 isoform g1887.t6 13691043 13701381
chr_3 g1887 g1887.t6 exon g1887.t6.exon1 13691043 13691056
chr_3 g1887 g1887.t6 exon g1887.t6.exon2 13691142 13691357
chr_3 g1887 g1887.t6 cds g1887.t6.CDS1 13691151 13691357
chr_3 g1887 g1887.t6 exon g1887.t6.exon3 13693870 13693964
chr_3 g1887 g1887.t6 cds g1887.t6.CDS2 13693870 13693964
chr_3 g1887 g1887.t6 exon g1887.t6.exon4 13699254 13699428
chr_3 g1887 g1887.t6 cds g1887.t6.CDS3 13699254 13699428
chr_3 g1887 g1887.t6 exon g1887.t6.exon5 13699490 13699722
chr_3 g1887 g1887.t6 cds g1887.t6.CDS4 13699490 13699722
chr_3 g1887 g1887.t6 exon g1887.t6.exon6 13699801 13701381
chr_3 g1887 g1887.t6 cds g1887.t6.CDS5 13699801 13699921
chr_3 g1887 g1887.t6 TSS g1887.t6 NA NA
chr_3 g1887 g1887.t6 TTS g1887.t6 NA NA

Sequences

>g1887.t6 Gene=g1887 Length=2314
ATGTATCGAAACAAGCTGCTGATATGATCCTGTTGGATGACAACTTTGCGTCAATCGTTA
CTGGTGTTGAAGAAGGACGTTTGATTTTCGATAACTTGAAGAAATCAATTGCGTACACTC
TTACTTCAAATATTCCTGAAATTTCACCTTTCTTGGCTTTCATCTTGTGCGATATTCCAC
TTCCACTTGGAACAGTCACAATTTTGTGTATCGATTTGGGTACTGACATGGTTCCAGCCA
TTTCCTTAGCTTATGAAGAAGCCGAATCTGATATTATGAAAAGACAACCAAGGAATCCAT
TCACTGATAAATTGGTTAATGAGAGACTTATTTCTATGGCTTATGGTCAAATCGGTATGA
TTCAAGCTGCAGTTGGTTTCTTCGTTTACTTTGTCATTATGGCTGAAAATGGTTTCTTGC
CAGTAGATCTTTTCGGTATTCGTAAACAATGGGACTCAAAGGCCGTCAATGATTTGACTG
ATTCATACGGTCAAGAATGGACTTATCGCGATCGCAAGACCTTAGAATTCACATGTCACA
CTGCTTTCTTCATATCAATTGTCGTTGTACAATGGGCTGATCTCATCATCTGTAAGACCC
GTCGTAATTCAATCTTCCATCAAGGAATGAGAAACTGGGCTTTGAACTTTGGTCTCATAT
TCGAAACAATCTTGGCCGCTATTTTGTCATACACACCGGGAATGGATAAGGGCTTACGCA
TGTATCCATTGAAATTCGTATGGTGGCTTCCAGCGTTGCCGTTCAGCTTGGCAATCTTCT
TGTATGACGAGACACGTCGCTTCTACTTAAGACGTAATCCAGGAGGATGGTTGGAGCAAG
AAACGTACTATTAAATTCATAACAACATCTTGGCGAGACAACATGTAGTAATAGTAATAA
TAATAAAAAAAAAGAATAATAATAATTTAAATGATAATAGTAAATTGGGAAATTGTGTGC
GAGGAGGAAAAACAGAATAAATTTAAAAAATTTAAAACGAAGAAAAAAGGAAAGATAAGT
GAGAGAAAGAGAATAACAAAAAAAAACCATATTCATATGTATTTTGCTGCCACAAAATTA
AGAGAAAAAATTATTACAAAAAATAATAATGATTAAAAAATATAAATAAAACTATCAAGA
AGAAATAAAGAAAAACTTTTAAATGATGATGCTACACGCGCTGGACAACTGACTAAAAAT
ATATAGTTGAAGTAATTGCTTTCTTATCCTCTTGCCCACATCCCACCAATAAAAATTATT
ATCTTCGATGATAAAGTCAAGTCAACACACGCATACACTCTCGCAGAGAAATTACATAAC
TACCATTCTGTCGCGTGAATAATAAATAGTACATTTTAGATGTAATAAAGCTGATTAAAA
AAATTACGATGATGATGATGTGTAATTTAAAATCCAGAGGAAGAAGAGTCATTATTTAAA
AGAAAATAATAAATTTTACTCTATCTAACTATCTTGATTTCCATTCATTTTTTAATCTCT
TTGCCATGTTCTGTTCTTCATTCCTCTCACACGAGAATTTCTTTTTTGATGACATTATAA
ATAAGAAAAAAAAGCTAAACGAAGAAAAAATTAAAAGCAACAAAACTAAAATTTGAAAGA
AAAACAAAGGAAGGATGTAAAGTGTGCGCGTTAACGCAATTTAATTTTTCCTTTTGTTGC
GCGAGCGAGAAAGATAAGTGTAGGATTACATATGTACAAGAACAGAACACACAAGAGTTG
AGAATAGGATAGAATTGATAGAGATAAAGAAAGAAAAAGGATAGAAGAACAAGACAGAAG
ATAAAACATTAAAATTATAAAAAAAAAACATATTTAAATTTAAATATAACTATTAATTAA
TAGATAGTGTGTGTATGCATGCGTCGCAAGCGATGTTTCTTACAGCAATTTATGATAAAT
GAAATTATTAAAAAAATTGCCCAATTTTATCATTACATGGTGAATAGATTTTCCATTTCA
GTTCGCTACATTTCTCAATTTCTCTCACTCTTTCGAAAAAAAAAAACAAAAAAACACATG
GAAGGTACACGACTACTACTTTATTCTTTACGATAATAATTTGAAGATAATTTCTATTGA
ATAATTTTTTCAATTTTTTCTTAGTAAAAATCTACTCAATTCTATATTCCTCTCATCTCA
CCATTCTTTTCTTTTCTATTTTGTTTGTTGTAAGTTTTTTCTTTCTTTTAAATTATCATT
TTATTACTGATATATTTGATGAATATAACACCTATAATTATAAGACATGAAATGAAAAAA
TAAACAAAAACATGCTACTGAATTAAAGTAAAAG

>g1887.t6 Gene=g1887 Length=276
MILLDDNFASIVTGVEEGRLIFDNLKKSIAYTLTSNIPEISPFLAFILCDIPLPLGTVTI
LCIDLGTDMVPAISLAYEEAESDIMKRQPRNPFTDKLVNERLISMAYGQIGMIQAAVGFF
VYFVIMAENGFLPVDLFGIRKQWDSKAVNDLTDSYGQEWTYRDRKTLEFTCHTAFFISIV
VVQWADLIICKTRRNSIFHQGMRNWALNFGLIFETILAAILSYTPGMDKGLRMYPLKFVW
WLPALPFSLAIFLYDETRRFYLRRNPGGWLEQETYY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g1887.t6 Gene3D G3DSA:1.20.1110.10 - 1 276 1.8E-123
2 g1887.t6 PANTHER PTHR43294:SF6 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA-2 1 276 2.3E-158
3 g1887.t6 PANTHER PTHR43294 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA 1 276 2.3E-158
6 g1887.t6 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 40 61 2.9E-50
4 g1887.t6 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 107 127 2.9E-50
7 g1887.t6 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 169 189 2.9E-50
5 g1887.t6 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 203 227 2.9E-50
1 g1887.t6 Pfam PF00689 Cation transporting ATPase, C-terminus 52 260 1.0E-44
14 g1887.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 105 -
19 g1887.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 106 125 -
17 g1887.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 126 166 -
22 g1887.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 167 185 -
16 g1887.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 186 204 -
21 g1887.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 205 226 -
18 g1887.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 227 237 -
20 g1887.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 238 254 -
15 g1887.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 255 276 -
12 g1887.t6 SUPERFAMILY SSF81665 Calcium ATPase, transmembrane domain M 18 266 2.09E-59
9 g1887.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 105 127 -
8 g1887.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 166 185 -
10 g1887.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 205 227 -
11 g1887.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 237 254 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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