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.t3 TSS g1887.t3 13673442 13673442
chr_3 g1887 g1887.t3 isoform g1887.t3 13673662 13699921
chr_3 g1887 g1887.t3 exon g1887.t3.exon1 13673662 13673673
chr_3 g1887 g1887.t3 cds g1887.t3.CDS1 13673662 13673673
chr_3 g1887 g1887.t3 exon g1887.t3.exon2 13686398 13686478
chr_3 g1887 g1887.t3 cds g1887.t3.CDS2 13686398 13686478
chr_3 g1887 g1887.t3 exon g1887.t3.exon3 13688560 13688685
chr_3 g1887 g1887.t3 cds g1887.t3.CDS3 13688560 13688685
chr_3 g1887 g1887.t3 exon g1887.t3.exon4 13688805 13689071
chr_3 g1887 g1887.t3 cds g1887.t3.CDS4 13688805 13689071
chr_3 g1887 g1887.t3 exon g1887.t3.exon5 13689212 13689397
chr_3 g1887 g1887.t3 cds g1887.t3.CDS5 13689212 13689397
chr_3 g1887 g1887.t3 exon g1887.t3.exon6 13689461 13691056
chr_3 g1887 g1887.t3 cds g1887.t3.CDS6 13689461 13691056
chr_3 g1887 g1887.t3 exon g1887.t3.exon7 13691142 13691357
chr_3 g1887 g1887.t3 cds g1887.t3.CDS7 13691142 13691357
chr_3 g1887 g1887.t3 exon g1887.t3.exon8 13692559 13692642
chr_3 g1887 g1887.t3 cds g1887.t3.CDS8 13692559 13692642
chr_3 g1887 g1887.t3 exon g1887.t3.exon9 13693870 13693964
chr_3 g1887 g1887.t3 cds g1887.t3.CDS9 13693870 13693964
chr_3 g1887 g1887.t3 exon g1887.t3.exon10 13699254 13699428
chr_3 g1887 g1887.t3 cds g1887.t3.CDS10 13699254 13699428
chr_3 g1887 g1887.t3 exon g1887.t3.exon11 13699490 13699722
chr_3 g1887 g1887.t3 cds g1887.t3.CDS11 13699490 13699722
chr_3 g1887 g1887.t3 exon g1887.t3.exon12 13699801 13699921
chr_3 g1887 g1887.t3 cds g1887.t3.CDS12 13699801 13699921
chr_3 g1887 g1887.t3 TTS g1887.t3 13700066 13700066

Sequences

>g1887.t3 Gene=g1887 Length=3192
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
TGTATCGATTTGGGTACTGACATGGTTCCAGCTATTTCACTAGCCTATGAGCATGCTGAA
GCAGACATTATGAAGCGTCCACCTCGCGATCCTTTCAACGACAAATTAGTTCCAGCCATT
TCCTTAGCTTATGAAGAAGCCGAATCTGATATTATGAAAAGACAACCAAGGAATCCATTC
ACTGATAAATTGGTTAATGAGAGACTTATTTCTATGGCTTATGGTCAAATCGGTATGATT
CAAGCTGCAGTTGGTTTCTTCGTTTACTTTGTCATTATGGCTGAAAATGGTTTCTTGCCA
GTAGATCTTTTCGGTATTCGTAAACAATGGGACTCAAAGGCCGTCAATGATTTGACTGAT
TCATACGGTCAAGAATGGACTTATCGCGATCGCAAGACCTTAGAATTCACATGTCACACT
GCTTTCTTCATATCAATTGTCGTTGTACAATGGGCTGATCTCATCATCTGTAAGACCCGT
CGTAATTCAATCTTCCATCAAGGAATGAGAAACTGGGCTTTGAACTTTGGTCTCATATTC
GAAACAATCTTGGCCGCTATTTTGTCATACACACCGGGAATGGATAAGGGCTTACGCATG
TATCCATTGAAATTCGTATGGTGGCTTCCAGCGTTGCCGTTCAGCTTGGCAATCTTCTTG
TATGACGAGACACGTCGCTTCTACTTAAGACGTAATCCAGGAGGATGGTTGGAGCAAGAA
ACGTACTATTAA

>g1887.t3 Gene=g1887 Length=1063
MQYDTGRSDSYRVATVPSVEDDNLTADGQYRSRRKMPPKKKDNLDDLKQELDIDYHKISA
EELYQRFQTHPENGLSHAKAKENLERDGPNALTPPKQTPEWVKFCKNLFGGFALLLWIGA
ILCFIAYSIQASTVEEPADDNLYLGIVLSAVVIVTGIFSYYQESKSSKIMESFKNMVPQF
ATVIREGEKLTLRAEDLVLGDVVEVKFGDRIPADIRIIEARNFKVDNSSLTGESEPQSRG
HEYTHENPLETKNLAFFSTNAVEGTAKGVVISCGDRTVMGRIAGLASGLDTGETPIAKEI
HHFIHLITGVAVFLGVTFFIIAFILGYHWLDAVIFLIGIIVANVPEGLLATVTVCLTLTA
KRMASKNCLVKNLEAVETLGSTSTICSDKTGTLTQNRMTVAHMWFDNQIIEADTTEDQSG
VQYDRTSPGFKALSRIATLCNRAEFKGGQEGVPILKKEVSGDASEAALLKCMELALGDVM
TIRKRNKKICEIPFNSTNKFQVSIHETEDASDPRYLLVMKGAPERILERSSTIFINGKEK
LMDEEMKEAFNNAYLELGGLGERVLGFCDCLLPSDKYPQGFKFNSDDVNFPLENLRFVGL
MSMIDPPRAAVPDAVAKCRSAGIKVIMVTGDHPITAKAIAKSVGIISEGNETVEDIAQRL
NIPVSEVNPREAKAAVVHGAELRDISSDQLDEILRYHTEIVFARTSPQQKLIIVEGCQRM
GAIVAVTGDGVNDSPALKKADIGVAMGIAGSDVSKQAADMILLDDNFASIVTGVEEGRLI
FDNLKKSIAYTLTSNIPEISPFLAFILCDIPLPLGTVTILCIDLGTDMVPAISLAYEHAE
ADIMKRPPRDPFNDKLVPAISLAYEEAESDIMKRQPRNPFTDKLVNERLISMAYGQIGMI
QAAVGFFVYFVIMAENGFLPVDLFGIRKQWDSKAVNDLTDSYGQEWTYRDRKTLEFTCHT
AFFISIVVVQWADLIICKTRRNSIFHQGMRNWALNFGLIFETILAAILSYTPGMDKGLRM
YPLKFVWWLPALPFSLAIFLYDETRRFYLRRNPGGWLEQETYY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
51 g1887.t3 CDD cd02608 P-type_ATPase_Na-K_like 74 1060 0.0
31 g1887.t3 Gene3D G3DSA:2.70.150.10 - 53 288 0.0
33 g1887.t3 Gene3D G3DSA:1.20.1110.10 - 106 857 0.0
29 g1887.t3 Gene3D G3DSA:3.40.50.1000 - 383 767 0.0
30 g1887.t3 Gene3D G3DSA:3.40.1110.10 - 396 606 0.0
32 g1887.t3 Gene3D G3DSA:1.20.1110.10 - 858 1063 3.4E-83
63 g1887.t3 MobiDBLite mobidb-lite consensus disorder prediction 1 43 -
62 g1887.t3 MobiDBLite mobidb-lite consensus disorder prediction 26 43 -
7 g1887.t3 PANTHER PTHR43294:SF16 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA 6 857 0.0
9 g1887.t3 PANTHER PTHR43294 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA 6 857 0.0
6 g1887.t3 PANTHER PTHR43294:SF16 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA 856 1063 0.0
8 g1887.t3 PANTHER PTHR43294 SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA 856 1063 0.0
10 g1887.t3 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 115 129 6.4E-96
16 g1887.t3 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 142 162 6.4E-96
23 g1887.t3 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 226 240 1.6E-42
17 g1887.t3 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 306 328 6.4E-96
13 g1887.t3 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 379 400 6.4E-96
22 g1887.t3 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 386 400 1.6E-42
14 g1887.t3 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 517 535 6.4E-96
21 g1887.t3 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 599 610 1.6E-42
20 g1887.t3 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 621 631 1.6E-42
19 g1887.t3 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 727 746 1.6E-42
18 g1887.t3 PRINTS PR00119 P-type cation-transporting ATPase superfamily signature 751 763 1.6E-42
12 g1887.t3 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 894 914 6.4E-96
15 g1887.t3 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 956 976 6.4E-96
11 g1887.t3 PRINTS PR00121 Sodium/potassium-transporting ATPase signature 990 1014 6.4E-96
5 g1887.t3 Pfam PF00690 Cation transporter/ATPase, N-terminus 55 123 8.1E-18
3 g1887.t3 Pfam PF00122 E1-E2 ATPase 176 366 1.5E-43
4 g1887.t3 Pfam PF13246 Cation transport ATPase (P-type) 438 533 8.0E-22
2 g1887.t3 Pfam PF00689 Cation transporting ATPase, C-terminus 811 851 5.4E-12
1 g1887.t3 Pfam PF00689 Cation transporting ATPase, C-terminus 856 1047 6.8E-35
34 g1887.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 107 -
47 g1887.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 108 130 -
42 g1887.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 131 141 -
46 g1887.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 142 161 -
35 g1887.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 162 302 -
44 g1887.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 303 327 -
41 g1887.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 328 332 -
45 g1887.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 333 356 -
36 g1887.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 357 892 -
50 g1887.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 893 912 -
39 g1887.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 913 953 -
49 g1887.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 954 972 -
37 g1887.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 973 991 -
48 g1887.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 992 1013 -
40 g1887.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1014 1024 -
43 g1887.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 1025 1041 -
38 g1887.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1042 1063 -
61 g1887.t3 ProSitePatterns PS00154 E1-E2 ATPases phosphorylation site. 388 394 -
67 g1887.t3 SFLD SFLDF00027 p-type atpase 367 779 0.0
68 g1887.t3 SFLD SFLDS00003 Haloacid Dehalogenase 367 779 0.0
60 g1887.t3 SMART SM00831 Cation_ATPase_N_a_2 54 128 2.3E-25
26 g1887.t3 SUPERFAMILY SSF81665 Calcium ATPase, transmembrane domain M 53 851 4.71E-94
27 g1887.t3 SUPERFAMILY SSF81653 Calcium ATPase, transduction domain A 178 284 2.35E-26
24 g1887.t3 SUPERFAMILY SSF81660 Metal cation-transporting ATPase, ATP-binding domain N 395 607 8.5E-69
28 g1887.t3 SUPERFAMILY SSF56784 HAD-like 595 776 9.4E-41
25 g1887.t3 SUPERFAMILY SSF81665 Calcium ATPase, transmembrane domain M 857 1053 3.53E-38
66 g1887.t3 TIGRFAM TIGR01106 ATPase-IIC_X-K: Na,H/K antiporter P-type ATPase, alpha subunit 39 857 0.0
65 g1887.t3 TIGRFAM TIGR01494 ATPase_P-type: HAD ATPase, P-type, family IC 148 416 9.5E-43
64 g1887.t3 TIGRFAM TIGR01494 ATPase_P-type: HAD ATPase, P-type, family IC 701 817 1.5E-31
55 g1887.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 107 129 -
54 g1887.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 142 161 -
53 g1887.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 302 324 -
52 g1887.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 334 356 -
57 g1887.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 892 914 -
56 g1887.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 953 972 -
58 g1887.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 992 1014 -
59 g1887.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 1024 1041 -

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