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.t5 isoform g1887.t5 13686398 13693964
chr_3 g1887 g1887.t5 exon g1887.t5.exon1 13686398 13686478
chr_3 g1887 g1887.t5 exon g1887.t5.exon2 13688560 13688685
chr_3 g1887 g1887.t5 cds g1887.t5.CDS1 13688572 13688685
chr_3 g1887 g1887.t5 exon g1887.t5.exon3 13688805 13689071
chr_3 g1887 g1887.t5 cds g1887.t5.CDS2 13688805 13689071
chr_3 g1887 g1887.t5 exon g1887.t5.exon4 13689212 13689397
chr_3 g1887 g1887.t5 cds g1887.t5.CDS3 13689212 13689397
chr_3 g1887 g1887.t5 exon g1887.t5.exon5 13689461 13691056
chr_3 g1887 g1887.t5 cds g1887.t5.CDS4 13689461 13691056
chr_3 g1887 g1887.t5 exon g1887.t5.exon6 13691142 13691357
chr_3 g1887 g1887.t5 cds g1887.t5.CDS5 13691142 13691357
chr_3 g1887 g1887.t5 exon g1887.t5.exon7 13693870 13693964
chr_3 g1887 g1887.t5 cds g1887.t5.CDS6 13693870 13693962
chr_3 g1887 g1887.t5 TSS g1887.t5 NA NA
chr_3 g1887 g1887.t5 TTS g1887.t5 NA NA

Sequences

>g1887.t5 Gene=g1887 Length=2567
ACCGGCAGATCAGACTCTTATAGAGTCGCAACTGTACCCTCAGTAGAAGATGACAATCTT
ACTGCTGATGGACAATACAGGTCAAGACGCAAAATGCCGCCCAAGAAAAAGGATAATTTA
GATGATTTAAAACAGGAATTGGATATCGATTATCACAAAATTTCAGCAGAAGAATTATAT
CAAAGATTTCAAACACATCCTGAAAATGGTTTAAGTCATGCAAAAGCAAAAGAAAACTTG
GAAAGAGATGGACCAAACGCTTTAACACCACCCAAACAAACTCCAGAATGGGTTAAGTTT
TGTAAGAATCTCTTTGGTGGTTTCGCTCTTCTTCTGTGGATCGGTGCAATATTATGTTTT
ATTGCCTATTCAATTCAAGCCAGTACGGTCGAGGAACCAGCTGACGATAATTTATATTTA
GGTATTGTACTTTCTGCTGTCGTTATAGTCACTGGTATTTTCTCATATTACCAGGAATCA
AAAAGTTCGAAAATTATGGAATCGTTCAAAAACATGGTACCGCAATTCGCTACTGTTATT
CGTGAAGGTGAAAAATTGACTCTACGAGCTGAAGATTTGGTTTTGGGTGATGTTGTTGAA
GTTAAATTTGGTGATCGAATACCAGCCGATATTAGAATTATTGAAGCTAGAAATTTCAAG
GTTGACAATTCATCATTGACAGGCGAATCTGAACCACAATCGCGAGGCCATGAATATACA
CACGAGAATCCATTGGAAACGAAAAATTTAGCCTTTTTCTCAACGAATGCCGTGGAAGGA
ACAGCAAAGGGTGTTGTCATTTCATGTGGTGACAGAACCGTGATGGGAAGAATTGCTGGT
TTGGCCTCTGGACTCGATACAGGAGAGACACCAATTGCTAAGGAAATTCACCATTTCATT
CATTTGATTACTGGTGTCGCTGTGTTCTTGGGAGTTACTTTCTTCATCATTGCCTTCATT
CTCGGTTATCACTGGCTTGACGCTGTTATTTTCCTTATCGGTATTATCGTCGCTAATGTA
CCAGAAGGTCTACTGGCTACTGTCACTGTGTGCTTGACTCTCACTGCAAAACGTATGGCC
TCAAAGAATTGTTTAGTCAAGAATTTGGAAGCTGTCGAAACATTGGGATCAACATCAACT
ATCTGTTCAGATAAGACCGGTACACTTACTCAAAACCGTATGACTGTTGCACACATGTGG
TTTGACAATCAGATCATTGAGGCCGATACAACTGAAGATCAATCAGGTGTTCAATATGAT
CGTACAAGTCCCGGATTCAAAGCTTTATCACGTATTGCGACATTATGTAATCGTGCCGAA
TTCAAAGGTGGTCAAGAAGGTGTTCCAATTTTGAAGAAAGAAGTCTCTGGTGATGCTTCA
GAAGCTGCTTTGCTTAAATGTATGGAACTTGCTCTTGGCGATGTAATGACAATCCGTAAA
CGCAACAAAAAGATTTGTGAAATTCCATTCAATTCTACAAACAAATTCCAAGTGTCAATT
CATGAAACTGAAGATGCAAGTGATCCACGTTATTTATTGGTCATGAAAGGTGCACCAGAA
CGAATTCTTGAACGTTCAAGCACAATTTTCATCAATGGAAAAGAAAAATTAATGGACGAA
GAAATGAAGGAAGCTTTCAACAATGCATACTTGGAACTTGGTGGTCTTGGCGAGCGTGTC
TTGGGATTCTGCGATTGTCTCTTGCCATCTGATAAATATCCACAAGGCTTCAAATTCAAT
TCGGACGACGTTAATTTCCCACTTGAAAACTTGCGTTTTGTCGGTCTCATGTCAATGATT
GATCCACCCCGTGCTGCTGTACCTGATGCTGTTGCTAAGTGCCGTTCAGCTGGTATTAAA
GTAATTATGGTCACTGGTGACCATCCAATCACTGCCAAGGCTATTGCCAAATCCGTCGGT
ATTATCTCGGAGGGCAATGAAACTGTTGAAGATATTGCACAACGACTAAACATTCCTGTT
TCGGAAGTAAATCCACGCGAGGCAAAGGCTGCGGTCGTTCATGGTGCCGAATTACGCGAT
ATTTCATCGGATCAACTTGATGAAATTTTACGCTACCATACTGAAATCGTCTTTGCCCGC
ACATCACCACAACAAAAATTGATTATTGTTGAAGGTTGTCAGCGTATGGGTGCTATTGTC
GCTGTAACTGGTGATGGTGTCAATGATTCTCCTGCTTTGAAGAAGGCTGATATTGGTGTT
GCTATGGGTATTGCTGGTTCTGATGTATCGAAACAAGCTGCTGATATGATCCTGTTGGAT
GACAACTTTGCGTCAATCGTTACTGGTGTTGAAGAAGGACGTTTGATTTTCGATAACTTG
AAGAAATCAATTGCGTACACTCTTACTTCAAATATTCCTGAAATTTCACCTTTCTTGGCT
TTCATCTTGTGCGATATTCCACTTCCACTTGGAACAGTCACAATTTTGTGTATCGATTTG
GGTACTGACATGGTTCCAGCCATTTCCTTAGCTTATGAAGAAGCCGAATCTGATATTATG
AAAAGACAACCAAGGAATCCATTCACTGATAAATTGGTTAATGAGAG

>g1887.t5 Gene=g1887 Length=824
MPPKKKDNLDDLKQELDIDYHKISAEELYQRFQTHPENGLSHAKAKENLERDGPNALTPP
KQTPEWVKFCKNLFGGFALLLWIGAILCFIAYSIQASTVEEPADDNLYLGIVLSAVVIVT
GIFSYYQESKSSKIMESFKNMVPQFATVIREGEKLTLRAEDLVLGDVVEVKFGDRIPADI
RIIEARNFKVDNSSLTGESEPQSRGHEYTHENPLETKNLAFFSTNAVEGTAKGVVISCGD
RTVMGRIAGLASGLDTGETPIAKEIHHFIHLITGVAVFLGVTFFIIAFILGYHWLDAVIF
LIGIIVANVPEGLLATVTVCLTLTAKRMASKNCLVKNLEAVETLGSTSTICSDKTGTLTQ
NRMTVAHMWFDNQIIEADTTEDQSGVQYDRTSPGFKALSRIATLCNRAEFKGGQEGVPIL
KKEVSGDASEAALLKCMELALGDVMTIRKRNKKICEIPFNSTNKFQVSIHETEDASDPRY
LLVMKGAPERILERSSTIFINGKEKLMDEEMKEAFNNAYLELGGLGERVLGFCDCLLPSD
KYPQGFKFNSDDVNFPLENLRFVGLMSMIDPPRAAVPDAVAKCRSAGIKVIMVTGDHPIT
AKAIAKSVGIISEGNETVEDIAQRLNIPVSEVNPREAKAAVVHGAELRDISSDQLDEILR
YHTEIVFARTSPQQKLIIVEGCQRMGAIVAVTGDGVNDSPALKKADIGVAMGIAGSDVSK
QAADMILLDDNFASIVTGVEEGRLIFDNLKKSIAYTLTSNIPEISPFLAFILCDIPLPLG
TVTILCIDLGTDMVPAISLAYEEAESDIMKRQPRNPFTDKLVNE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
26 g1887.t5 Gene3D G3DSA:2.70.150.10 - 18 253 0.0
27 g1887.t5 Gene3D G3DSA:1.20.1110.10 - 71 823 0.0
24 g1887.t5 Gene3D G3DSA:3.40.50.1000 - 348 732 0.0
25 g1887.t5 Gene3D G3DSA:3.40.1110.10 - 361 571 0.0
6 g1887.t5 PANTHER PTHR43294:SF16 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA 5 824 0.0
7 g1887.t5 PANTHER PTHR43294 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA 5 824 0.0
12 g1887.t5 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 80 94 1.6E-71
10 g1887.t5 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 107 127 1.6E-71
15 g1887.t5 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 191 205 3.7E-43
8 g1887.t5 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 271 293 1.6E-71
13 g1887.t5 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 344 365 1.6E-71
16 g1887.t5 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 351 365 3.7E-43
11 g1887.t5 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 482 500 1.6E-71
17 g1887.t5 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 564 575 3.7E-43
19 g1887.t5 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 586 596 3.7E-43
14 g1887.t5 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 692 711 3.7E-43
18 g1887.t5 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 716 728 3.7E-43
9 g1887.t5 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 764 785 1.6E-71
5 g1887.t5 Pfam PF00690 Cation transporter/ATPase, N-terminus 20 88 5.9E-18
2 g1887.t5 Pfam PF00122 E1-E2 ATPase 141 331 9.7E-44
4 g1887.t5 Pfam PF13246 Cation transport ATPase (P-type) 403 498 5.6E-22
3 g1887.t5 Pfam PF00702 haloacid dehalogenase-like hydrolase 634 706 7.1E-6
1 g1887.t5 Pfam PF00689 Cation transporting ATPase, C-terminus 776 823 3.4E-12
28 g1887.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 72 -
36 g1887.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 73 95 -
32 g1887.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 96 106 -
35 g1887.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 107 126 -
30 g1887.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 127 267 -
33 g1887.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 268 292 -
31 g1887.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 293 297 -
34 g1887.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 298 321 -
29 g1887.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 322 824 -
41 g1887.t5 ProSitePatterns PS00154 E1-E2 ATPases phosphorylation site. 353 359 -
46 g1887.t5 SFLD SFLDF00027 p-type atpase 332 744 0.0
47 g1887.t5 SFLD SFLDG00002 C1.7: P-type atpase like 332 744 0.0
42 g1887.t5 SMART SM00831 Cation_ATPase_N_a_2 19 93 2.3E-25
21 g1887.t5 SUPERFAMILY SSF81665 Calcium ATPase, transmembrane domain M 18 820 4.05E-94
22 g1887.t5 SUPERFAMILY SSF81653 Calcium ATPase, transduction domain A 143 249 1.7E-26
20 g1887.t5 SUPERFAMILY SSF81660 Metal cation-transporting ATPase, ATP-binding domain N 360 572 5.56E-69
23 g1887.t5 SUPERFAMILY SSF56784 HAD-like 560 741 5.51E-41
45 g1887.t5 TIGRFAM TIGR01106 ATPase-IIC_X-K: Na,H/K antiporter P-type ATPase, alpha subunit 4 824 0.0
43 g1887.t5 TIGRFAM TIGR01494 ATPase_P-type: HAD ATPase, P-type, family IC 113 381 6.3E-43
44 g1887.t5 TIGRFAM TIGR01494 ATPase_P-type: HAD ATPase, P-type, family IC 666 783 1.1E-31
39 g1887.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 72 94 -
40 g1887.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 107 126 -
38 g1887.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 267 289 -
37 g1887.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 299 321 -

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:0005524 ATP binding MF
GO:0000166 nucleotide binding MF
GO:0016021 integral component of membrane CC
GO:0008556 P-type potassium transmembrane transporter activity MF

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