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.t2 TSS g1887.t2 13673442 13673442
chr_3 g1887 g1887.t2 isoform g1887.t2 13673662 13699921
chr_3 g1887 g1887.t2 exon g1887.t2.exon1 13673662 13673673
chr_3 g1887 g1887.t2 cds g1887.t2.CDS1 13673662 13673673
chr_3 g1887 g1887.t2 exon g1887.t2.exon2 13686398 13686478
chr_3 g1887 g1887.t2 cds g1887.t2.CDS2 13686398 13686478
chr_3 g1887 g1887.t2 exon g1887.t2.exon3 13688560 13688685
chr_3 g1887 g1887.t2 cds g1887.t2.CDS3 13688560 13688685
chr_3 g1887 g1887.t2 exon g1887.t2.exon4 13688805 13689071
chr_3 g1887 g1887.t2 cds g1887.t2.CDS4 13688805 13689071
chr_3 g1887 g1887.t2 exon g1887.t2.exon5 13689212 13689397
chr_3 g1887 g1887.t2 cds g1887.t2.CDS5 13689212 13689397
chr_3 g1887 g1887.t2 exon g1887.t2.exon6 13689461 13691056
chr_3 g1887 g1887.t2 cds g1887.t2.CDS6 13689461 13691056
chr_3 g1887 g1887.t2 exon g1887.t2.exon7 13691142 13691357
chr_3 g1887 g1887.t2 cds g1887.t2.CDS7 13691142 13691357
chr_3 g1887 g1887.t2 exon g1887.t2.exon8 13693870 13693964
chr_3 g1887 g1887.t2 cds g1887.t2.CDS8 13693870 13693964
chr_3 g1887 g1887.t2 exon g1887.t2.exon9 13699254 13699428
chr_3 g1887 g1887.t2 cds g1887.t2.CDS9 13699254 13699428
chr_3 g1887 g1887.t2 exon g1887.t2.exon10 13699490 13699722
chr_3 g1887 g1887.t2 cds g1887.t2.CDS10 13699490 13699722
chr_3 g1887 g1887.t2 exon g1887.t2.exon11 13699801 13699921
chr_3 g1887 g1887.t2 cds g1887.t2.CDS11 13699801 13699921
chr_3 g1887 g1887.t2 TTS g1887.t2 13700066 13700066

Sequences

>g1887.t2 Gene=g1887 Length=3108
ATGCAATACGATACCGGCAGATCAGACTCTTATAGAGTCGCAACTGTACCCTCAGTAGAA
GATGACAATCTTACTGCTGATGGACAATACAGGTCAAGACGCAAAATGCCGCCCAAGAAA
AAGGATAATTTAGATGATTTAAAACAGGAATTGGATATCGATTATCACAAAATTTCAGCA
GAAGAATTATATCAAAGATTTCAAACACATCCTGAAAATGGTTTAAGTCATGCAAAAGCA
AAAGAAAACTTGGAAAGAGATGGACCAAACGCTTTAACACCACCCAAACAAACTCCAGAA
TGGGTTAAGTTTTGTAAGAATCTCTTTGGTGGTTTCGCTCTTCTTCTGTGGATCGGTGCA
ATATTATGTTTTATTGCCTATTCAATTCAAGCCAGTACGGTCGAGGAACCAGCTGACGAT
AATTTATATTTAGGTATTGTACTTTCTGCTGTCGTTATAGTCACTGGTATTTTCTCATAT
TACCAGGAATCAAAAAGTTCGAAAATTATGGAATCGTTCAAAAACATGGTACCGCAATTC
GCTACTGTTATTCGTGAAGGTGAAAAATTGACTCTACGAGCTGAAGATTTGGTTTTGGGT
GATGTTGTTGAAGTTAAATTTGGTGATCGAATACCAGCCGATATTAGAATTATTGAAGCT
AGAAATTTCAAGGTTGACAATTCATCATTGACAGGCGAATCTGAACCACAATCGCGAGGC
CATGAATATACACACGAGAATCCATTGGAAACGAAAAATTTAGCCTTTTTCTCAACGAAT
GCCGTGGAAGGAACAGCAAAGGGTGTTGTCATTTCATGTGGTGACAGAACCGTGATGGGA
AGAATTGCTGGTTTGGCCTCTGGACTCGATACAGGAGAGACACCAATTGCTAAGGAAATT
CACCATTTCATTCATTTGATTACTGGTGTCGCTGTGTTCTTGGGAGTTACTTTCTTCATC
ATTGCCTTCATTCTCGGTTATCACTGGCTTGACGCTGTTATTTTCCTTATCGGTATTATC
GTCGCTAATGTACCAGAAGGTCTACTGGCTACTGTCACTGTGTGCTTGACTCTCACTGCA
AAACGTATGGCCTCAAAGAATTGTTTAGTCAAGAATTTGGAAGCTGTCGAAACATTGGGA
TCAACATCAACTATCTGTTCAGATAAGACCGGTACACTTACTCAAAACCGTATGACTGTT
GCACACATGTGGTTTGACAATCAGATCATTGAGGCCGATACAACTGAAGATCAATCAGGT
GTTCAATATGATCGTACAAGTCCCGGATTCAAAGCTTTATCACGTATTGCGACATTATGT
AATCGTGCCGAATTCAAAGGTGGTCAAGAAGGTGTTCCAATTTTGAAGAAAGAAGTCTCT
GGTGATGCTTCAGAAGCTGCTTTGCTTAAATGTATGGAACTTGCTCTTGGCGATGTAATG
ACAATCCGTAAACGCAACAAAAAGATTTGTGAAATTCCATTCAATTCTACAAACAAATTC
CAAGTGTCAATTCATGAAACTGAAGATGCAAGTGATCCACGTTATTTATTGGTCATGAAA
GGTGCACCAGAACGAATTCTTGAACGTTCAAGCACAATTTTCATCAATGGAAAAGAAAAA
TTAATGGACGAAGAAATGAAGGAAGCTTTCAACAATGCATACTTGGAACTTGGTGGTCTT
GGCGAGCGTGTCTTGGGATTCTGCGATTGTCTCTTGCCATCTGATAAATATCCACAAGGC
TTCAAATTCAATTCGGACGACGTTAATTTCCCACTTGAAAACTTGCGTTTTGTCGGTCTC
ATGTCAATGATTGATCCACCCCGTGCTGCTGTACCTGATGCTGTTGCTAAGTGCCGTTCA
GCTGGTATTAAAGTAATTATGGTCACTGGTGACCATCCAATCACTGCCAAGGCTATTGCC
AAATCCGTCGGTATTATCTCGGAGGGCAATGAAACTGTTGAAGATATTGCACAACGACTA
AACATTCCTGTTTCGGAAGTAAATCCACGCGAGGCAAAGGCTGCGGTCGTTCATGGTGCC
GAATTACGCGATATTTCATCGGATCAACTTGATGAAATTTTACGCTACCATACTGAAATC
GTCTTTGCCCGCACATCACCACAACAAAAATTGATTATTGTTGAAGGTTGTCAGCGTATG
GGTGCTATTGTCGCTGTAACTGGTGATGGTGTCAATGATTCTCCTGCTTTGAAGAAGGCT
GATATTGGTGTTGCTATGGGTATTGCTGGTTCTGATGTATCGAAACAAGCTGCTGATATG
ATCCTGTTGGATGACAACTTTGCGTCAATCGTTACTGGTGTTGAAGAAGGACGTTTGATT
TTCGATAACTTGAAGAAATCAATTGCGTACACTCTTACTTCAAATATTCCTGAAATTTCA
CCTTTCTTGGCTTTCATCTTGTGCGATATTCCACTTCCACTTGGAACAGTCACAATTTTG
TGTATCGATTTGGGTACTGACATGGTTCCAGCCATTTCCTTAGCTTATGAAGAAGCCGAA
TCTGATATTATGAAAAGACAACCAAGGAATCCATTCACTGATAAATTGGTTAATGAGAGA
CTTATTTCTATGGCTTATGGTCAAATCGGTATGATTCAAGCTGCAGTTGGTTTCTTCGTT
TACTTTGTCATTATGGCTGAAAATGGTTTCTTGCCAGTAGATCTTTTCGGTATTCGTAAA
CAATGGGACTCAAAGGCCGTCAATGATTTGACTGATTCATACGGTCAAGAATGGACTTAT
CGCGATCGCAAGACCTTAGAATTCACATGTCACACTGCTTTCTTCATATCAATTGTCGTT
GTACAATGGGCTGATCTCATCATCTGTAAGACCCGTCGTAATTCAATCTTCCATCAAGGA
ATGAGAAACTGGGCTTTGAACTTTGGTCTCATATTCGAAACAATCTTGGCCGCTATTTTG
TCATACACACCGGGAATGGATAAGGGCTTACGCATGTATCCATTGAAATTCGTATGGTGG
CTTCCAGCGTTGCCGTTCAGCTTGGCAATCTTCTTGTATGACGAGACACGTCGCTTCTAC
TTAAGACGTAATCCAGGAGGATGGTTGGAGCAAGAAACGTACTATTAA

>g1887.t2 Gene=g1887 Length=1035
MQYDTGRSDSYRVATVPSVEDDNLTADGQYRSRRKMPPKKKDNLDDLKQELDIDYHKISA
EELYQRFQTHPENGLSHAKAKENLERDGPNALTPPKQTPEWVKFCKNLFGGFALLLWIGA
ILCFIAYSIQASTVEEPADDNLYLGIVLSAVVIVTGIFSYYQESKSSKIMESFKNMVPQF
ATVIREGEKLTLRAEDLVLGDVVEVKFGDRIPADIRIIEARNFKVDNSSLTGESEPQSRG
HEYTHENPLETKNLAFFSTNAVEGTAKGVVISCGDRTVMGRIAGLASGLDTGETPIAKEI
HHFIHLITGVAVFLGVTFFIIAFILGYHWLDAVIFLIGIIVANVPEGLLATVTVCLTLTA
KRMASKNCLVKNLEAVETLGSTSTICSDKTGTLTQNRMTVAHMWFDNQIIEADTTEDQSG
VQYDRTSPGFKALSRIATLCNRAEFKGGQEGVPILKKEVSGDASEAALLKCMELALGDVM
TIRKRNKKICEIPFNSTNKFQVSIHETEDASDPRYLLVMKGAPERILERSSTIFINGKEK
LMDEEMKEAFNNAYLELGGLGERVLGFCDCLLPSDKYPQGFKFNSDDVNFPLENLRFVGL
MSMIDPPRAAVPDAVAKCRSAGIKVIMVTGDHPITAKAIAKSVGIISEGNETVEDIAQRL
NIPVSEVNPREAKAAVVHGAELRDISSDQLDEILRYHTEIVFARTSPQQKLIIVEGCQRM
GAIVAVTGDGVNDSPALKKADIGVAMGIAGSDVSKQAADMILLDDNFASIVTGVEEGRLI
FDNLKKSIAYTLTSNIPEISPFLAFILCDIPLPLGTVTILCIDLGTDMVPAISLAYEEAE
SDIMKRQPRNPFTDKLVNERLISMAYGQIGMIQAAVGFFVYFVIMAENGFLPVDLFGIRK
QWDSKAVNDLTDSYGQEWTYRDRKTLEFTCHTAFFISIVVVQWADLIICKTRRNSIFHQG
MRNWALNFGLIFETILAAILSYTPGMDKGLRMYPLKFVWWLPALPFSLAIFLYDETRRFY
LRRNPGGWLEQETYY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
47 g1887.t2 CDD cd02608 P-type_ATPase_Na-K_like 74 1032 0.0
28 g1887.t2 Gene3D G3DSA:2.70.150.10 - 53 288 0.0
29 g1887.t2 Gene3D G3DSA:1.20.1110.10 - 106 1028 0.0
26 g1887.t2 Gene3D G3DSA:3.40.50.1000 - 383 767 0.0
27 g1887.t2 Gene3D G3DSA:3.40.1110.10 - 396 606 0.0
58 g1887.t2 MobiDBLite mobidb-lite consensus disorder prediction 1 44 -
59 g1887.t2 MobiDBLite mobidb-lite consensus disorder prediction 26 44 -
5 g1887.t2 PANTHER PTHR43294:SF16 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA 5 1035 0.0
6 g1887.t2 PANTHER PTHR43294 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA 5 1035 0.0
7 g1887.t2 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 115 129 2.6E-110
12 g1887.t2 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 142 162 2.6E-110
21 g1887.t2 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 226 240 1.3E-42
15 g1887.t2 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 306 328 2.6E-110
9 g1887.t2 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 379 400 2.6E-110
20 g1887.t2 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 386 400 1.3E-42
11 g1887.t2 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 517 535 2.6E-110
19 g1887.t2 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 599 610 1.3E-42
18 g1887.t2 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 621 631 1.3E-42
17 g1887.t2 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 727 746 1.3E-42
16 g1887.t2 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 751 763 1.3E-42
14 g1887.t2 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 799 820 2.6E-110
13 g1887.t2 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 866 886 2.6E-110
8 g1887.t2 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 928 948 2.6E-110
10 g1887.t2 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 962 986 2.6E-110
4 g1887.t2 Pfam PF00690 Cation transporter/ATPase, N-terminus 55 123 7.8E-18
2 g1887.t2 Pfam PF00122 E1-E2 ATPase 176 366 1.4E-43
3 g1887.t2 Pfam PF13246 Cation transport ATPase (P-type) 438 533 7.7E-22
1 g1887.t2 Pfam PF00689 Cation transporting ATPase, C-terminus 811 1019 2.2E-43
30 g1887.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 107 -
43 g1887.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 108 130 -
38 g1887.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 131 141 -
41 g1887.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 142 161 -
32 g1887.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 162 302 -
39 g1887.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 303 327 -
37 g1887.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 328 332 -
40 g1887.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 333 356 -
34 g1887.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 357 864 -
44 g1887.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 865 884 -
36 g1887.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 885 925 -
42 g1887.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 926 944 -
31 g1887.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 945 963 -
45 g1887.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 964 985 -
35 g1887.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 986 996 -
46 g1887.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 997 1013 -
33 g1887.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1014 1035 -
57 g1887.t2 ProSitePatterns PS00154 E1-E2 ATPases phosphorylation site. 388 394 -
63 g1887.t2 SFLD SFLDF00027 p-type atpase 367 779 0.0
64 g1887.t2 SFLD SFLDG00002 C1.7: P-type atpase like 367 779 0.0
56 g1887.t2 SMART SM00831 Cation_ATPase_N_a_2 54 128 2.3E-25
23 g1887.t2 SUPERFAMILY SSF81665 Calcium ATPase, transmembrane domain M 53 1025 2.09E-129
24 g1887.t2 SUPERFAMILY SSF81653 Calcium ATPase, transduction domain A 178 284 2.22E-26
22 g1887.t2 SUPERFAMILY SSF81660 Metal cation-transporting ATPase, ATP-binding domain N 395 607 8.17E-69
25 g1887.t2 SUPERFAMILY SSF56784 HAD-like 595 776 8.95E-41
62 g1887.t2 TIGRFAM TIGR01106 ATPase-IIC_X-K: Na,H/K antiporter P-type ATPase, alpha subunit 39 1035 0.0
61 g1887.t2 TIGRFAM TIGR01494 ATPase_P-type: HAD ATPase, P-type, family IC 148 416 9.0E-43
60 g1887.t2 TIGRFAM TIGR01494 ATPase_P-type: HAD ATPase, P-type, family IC 701 817 1.5E-31
54 g1887.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 107 129 -
53 g1887.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 142 161 -
52 g1887.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 302 324 -
50 g1887.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 334 356 -
51 g1887.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 864 886 -
55 g1887.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 925 944 -
49 g1887.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 964 986 -
48 g1887.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 996 1013 -

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

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