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.t4 TSS g1887.t4 13681730 13681730
chr_3 g1887 g1887.t4 isoform g1887.t4 13681892 13689531
chr_3 g1887 g1887.t4 exon g1887.t4.exon1 13681892 13682580
chr_3 g1887 g1887.t4 exon g1887.t4.exon2 13688560 13688685
chr_3 g1887 g1887.t4 cds g1887.t4.CDS1 13688572 13688685
chr_3 g1887 g1887.t4 exon g1887.t4.exon3 13688805 13689071
chr_3 g1887 g1887.t4 cds g1887.t4.CDS2 13688805 13689071
chr_3 g1887 g1887.t4 exon g1887.t4.exon4 13689212 13689397
chr_3 g1887 g1887.t4 cds g1887.t4.CDS3 13689212 13689397
chr_3 g1887 g1887.t4 exon g1887.t4.exon5 13689461 13689531
chr_3 g1887 g1887.t4 cds g1887.t4.CDS4 13689461 13689529
chr_3 g1887 g1887.t4 TTS g1887.t4 NA NA

Sequences

>g1887.t4 Gene=g1887 Length=1339
ATGATATAATAGAAAAAGTAAACGAAAAGAAAAAAAAATTAAAGTAGAGACTAAAAACTA
GCTCATAGCTCTTATTAAAATCGATCAACATTATCGAAAAAAAAAAATTCTTCTGTCCTT
GCAAAAGAAAAAGGATATTGCAACGGAGAAAGAGAGCGAGAGCAACATACAACTTTCGTT
GGATGAGAATCAAGAAAAATTGTGGTGTGTGGAGAAAACGAGAAATCAAGTGGTGGTGAA
GAAAATGACATAATACATATGTGCATAAAAAAGAGGTGTCGAATATCGATTTTTAGGCAT
ACTAAAAAATTCTAAACCAAATATACTGTACATCTAAAATAAAAACAAAGAAAAATTCAT
AATATAAAAAATCGAATTAATTTTCGGCATAATTTTTCCCGTCGGTGTGTATTTGTGTTA
GTGTGAAAAAAGGAAATCCTCAGCCACCAATACAAAGATACAATCCGTACAGTGTGAAAA
AGAGAAAAAGAAAAAGCCCCGAGAAAAGTCGTTACATAATTTTTTTTCATAAGTTGCCTG
AACAAAAAATATATAACAAGAATAATTATCTGTAAAACACACAGCTACTAAGTAGTTTCT
ACAATAAGAATTTTTCTAACAGTGCAATAAAAGGAGAAATCTACAGACAAATTTCATCTT
TAATTATTTATTAATTACATATAGAAGAATCAAGACGCAAAATGCCGCCCAAGAAAAAGG
ATAATTTAGATGATTTAAAACAGGAATTGGATATCGATTATCACAAAATTTCAGCAGAAG
AATTATATCAAAGATTTCAAACACATCCTGAAAATGGTTTAAGTCATGCAAAAGCAAAAG
AAAACTTGGAAAGAGATGGACCAAACGCTTTAACACCACCCAAACAAACTCCAGAATGGG
TTAAGTTTTGTAAGAATCTCTTTGGTGGTTTCGCTCTTCTTCTGTGGATCGGTGCAATAT
TATGTTTTATTGCCTATTCAATTCAAGCCAGTACGGTCGAGGAACCAGCTGACGATAATT
TATATTTAGGTATTGTACTTTCTGCTGTCGTTATAGTCACTGGTATTTTCTCATATTACC
AGGAATCAAAAAGTTCGAAAATTATGGAATCGTTCAAAAACATGGTACCGCAATTCGCTA
CTGTTATTCGTGAAGGTGAAAAATTGACTCTACGAGCTGAAGATTTGGTTTTGGGTGATG
TTGTTGAAGTTAAATTTGGTGATCGAATACCAGCCGATATTAGAATTATTGAAGCTAGAA
ATTTCAAGGTTGACAATTCATCATTGACAGGCGAATCTGAACCACAATCGCGAGGCCATG
AATATACACACGAGAATCC

>g1887.t4 Gene=g1887 Length=212
MPPKKKDNLDDLKQELDIDYHKISAEELYQRFQTHPENGLSHAKAKENLERDGPNALTPP
KQTPEWVKFCKNLFGGFALLLWIGAILCFIAYSIQASTVEEPADDNLYLGIVLSAVVIVT
GIFSYYQESKSSKIMESFKNMVPQFATVIREGEKLTLRAEDLVLGDVVEVKFGDRIPADI
RIIEARNFKVDNSSLTGESEPQSRGHEYTHEN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g1887.t4 Gene3D G3DSA:2.70.150.10 - 9 71 5.0E-11
11 g1887.t4 Gene3D G3DSA:1.20.1110.10 - 72 147 5.4E-27
9 g1887.t4 Gene3D G3DSA:2.60.120.1500 - 148 211 5.4E-20
20 g1887.t4 MobiDBLite mobidb-lite consensus disorder prediction 193 212 -
3 g1887.t4 PANTHER PTHR43294:SF9 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA-1 4 212 3.4E-96
4 g1887.t4 PANTHER PTHR43294 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA 4 212 3.4E-96
6 g1887.t4 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 80 94 7.3E-17
5 g1887.t4 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 107 127 7.3E-17
2 g1887.t4 Pfam PF00690 Cation transporter/ATPase, N-terminus 20 88 6.8E-19
1 g1887.t4 Pfam PF00122 E1-E2 ATPase 141 204 3.3E-19
12 g1887.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 72 -
16 g1887.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 73 95 -
14 g1887.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 96 106 -
15 g1887.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 107 126 -
13 g1887.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 127 212 -
19 g1887.t4 SMART SM00831 Cation_ATPase_N_a_2 19 93 2.3E-25
7 g1887.t4 SUPERFAMILY SSF81665 Calcium ATPase, transmembrane domain M 18 144 2.09E-32
8 g1887.t4 SUPERFAMILY SSF81653 Calcium ATPase, transduction domain A 143 206 1.57E-19
21 g1887.t4 TIGRFAM TIGR01494 ATPase_P-type: HAD ATPase, P-type, family IC 113 207 6.2E-18
17 g1887.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 72 94 -
18 g1887.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 107 126 -

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:0016021 integral component of membrane CC

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