General information for g1887.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Sodium/potassium-transporting ATPase subunit alpha.
Parent gene
- The parent gene g1887 is located on chr_3: 13699921..13701381 (+ strand)
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.t1 | TSS | g1887.t1 | 13673442 | 13673442 |
| chr_3 | g1887 | g1887.t1 | isoform | g1887.t1 | 13673662 | 13699921 |
| chr_3 | g1887 | g1887.t1 | exon | g1887.t1.exon1 | 13673662 | 13673673 |
| chr_3 | g1887 | g1887.t1 | cds | g1887.t1.CDS1 | 13673662 | 13673673 |
| chr_3 | g1887 | g1887.t1 | exon | g1887.t1.exon2 | 13686398 | 13686478 |
| chr_3 | g1887 | g1887.t1 | cds | g1887.t1.CDS2 | 13686398 | 13686478 |
| chr_3 | g1887 | g1887.t1 | exon | g1887.t1.exon3 | 13688560 | 13688685 |
| chr_3 | g1887 | g1887.t1 | cds | g1887.t1.CDS3 | 13688560 | 13688685 |
| chr_3 | g1887 | g1887.t1 | exon | g1887.t1.exon4 | 13688805 | 13689071 |
| chr_3 | g1887 | g1887.t1 | cds | g1887.t1.CDS4 | 13688805 | 13689071 |
| chr_3 | g1887 | g1887.t1 | exon | g1887.t1.exon5 | 13689212 | 13689397 |
| chr_3 | g1887 | g1887.t1 | cds | g1887.t1.CDS5 | 13689212 | 13689397 |
| chr_3 | g1887 | g1887.t1 | exon | g1887.t1.exon6 | 13689461 | 13691056 |
| chr_3 | g1887 | g1887.t1 | cds | g1887.t1.CDS6 | 13689461 | 13691056 |
| chr_3 | g1887 | g1887.t1 | exon | g1887.t1.exon7 | 13691142 | 13691357 |
| chr_3 | g1887 | g1887.t1 | cds | g1887.t1.CDS7 | 13691142 | 13691357 |
| chr_3 | g1887 | g1887.t1 | exon | g1887.t1.exon8 | 13692559 | 13692653 |
| chr_3 | g1887 | g1887.t1 | cds | g1887.t1.CDS8 | 13692559 | 13692653 |
| chr_3 | g1887 | g1887.t1 | exon | g1887.t1.exon9 | 13699254 | 13699428 |
| chr_3 | g1887 | g1887.t1 | cds | g1887.t1.CDS9 | 13699254 | 13699428 |
| chr_3 | g1887 | g1887.t1 | exon | g1887.t1.exon10 | 13699490 | 13699722 |
| chr_3 | g1887 | g1887.t1 | cds | g1887.t1.CDS10 | 13699490 | 13699722 |
| chr_3 | g1887 | g1887.t1 | exon | g1887.t1.exon11 | 13699801 | 13699921 |
| chr_3 | g1887 | g1887.t1 | cds | g1887.t1.CDS11 | 13699801 | 13699921 |
| chr_3 | g1887 | g1887.t1 | TTS | g1887.t1 | 13700066 | 13700066 |
Sequences
>g1887.t1 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
TGTATCGATTTGGGTACTGACATGGTTCCAGCTATTTCACTAGCCTATGAGCATGCTGAA
GCAGACATTATGAAGCGTCCACCTCGCGATCCTTTCAACGACAAATTAGTCAATCAAAGA
CTTATTTCTATGGCTTATGGTCAAATCGGTATGATTCAAGCTGCAGTTGGTTTCTTCGTT
TACTTTGTCATTATGGCTGAAAATGGTTTCTTGCCAGTAGATCTTTTCGGTATTCGTAAA
CAATGGGACTCAAAGGCCGTCAATGATTTGACTGATTCATACGGTCAAGAATGGACTTAT
CGCGATCGCAAGACCTTAGAATTCACATGTCACACTGCTTTCTTCATATCAATTGTCGTT
GTACAATGGGCTGATCTCATCATCTGTAAGACCCGTCGTAATTCAATCTTCCATCAAGGA
ATGAGAAACTGGGCTTTGAACTTTGGTCTCATATTCGAAACAATCTTGGCCGCTATTTTG
TCATACACACCGGGAATGGATAAGGGCTTACGCATGTATCCATTGAAATTCGTATGGTGG
CTTCCAGCGTTGCCGTTCAGCTTGGCAATCTTCTTGTATGACGAGACACGTCGCTTCTAC
TTAAGACGTAATCCAGGAGGATGGTTGGAGCAAGAAACGTACTATTAA
>g1887.t1 Gene=g1887 Length=1035
MQYDTGRSDSYRVATVPSVEDDNLTADGQYRSRRKMPPKKKDNLDDLKQELDIDYHKISA
EELYQRFQTHPENGLSHAKAKENLERDGPNALTPPKQTPEWVKFCKNLFGGFALLLWIGA
ILCFIAYSIQASTVEEPADDNLYLGIVLSAVVIVTGIFSYYQESKSSKIMESFKNMVPQF
ATVIREGEKLTLRAEDLVLGDVVEVKFGDRIPADIRIIEARNFKVDNSSLTGESEPQSRG
HEYTHENPLETKNLAFFSTNAVEGTAKGVVISCGDRTVMGRIAGLASGLDTGETPIAKEI
HHFIHLITGVAVFLGVTFFIIAFILGYHWLDAVIFLIGIIVANVPEGLLATVTVCLTLTA
KRMASKNCLVKNLEAVETLGSTSTICSDKTGTLTQNRMTVAHMWFDNQIIEADTTEDQSG
VQYDRTSPGFKALSRIATLCNRAEFKGGQEGVPILKKEVSGDASEAALLKCMELALGDVM
TIRKRNKKICEIPFNSTNKFQVSIHETEDASDPRYLLVMKGAPERILERSSTIFINGKEK
LMDEEMKEAFNNAYLELGGLGERVLGFCDCLLPSDKYPQGFKFNSDDVNFPLENLRFVGL
MSMIDPPRAAVPDAVAKCRSAGIKVIMVTGDHPITAKAIAKSVGIISEGNETVEDIAQRL
NIPVSEVNPREAKAAVVHGAELRDISSDQLDEILRYHTEIVFARTSPQQKLIIVEGCQRM
GAIVAVTGDGVNDSPALKKADIGVAMGIAGSDVSKQAADMILLDDNFASIVTGVEEGRLI
FDNLKKSIAYTLTSNIPEISPFLAFILCDIPLPLGTVTILCIDLGTDMVPAISLAYEHAE
ADIMKRPPRDPFNDKLVNQRLISMAYGQIGMIQAAVGFFVYFVIMAENGFLPVDLFGIRK
QWDSKAVNDLTDSYGQEWTYRDRKTLEFTCHTAFFISIVVVQWADLIICKTRRNSIFHQG
MRNWALNFGLIFETILAAILSYTPGMDKGLRMYPLKFVWWLPALPFSLAIFLYDETRRFY
LRRNPGGWLEQETYY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 47 | g1887.t1 | CDD | cd02608 | P-type_ATPase_Na-K_like | 74 | 1032 | 0.0 |
| 28 | g1887.t1 | Gene3D | G3DSA:2.70.150.10 | - | 53 | 288 | 0.0 |
| 29 | g1887.t1 | Gene3D | G3DSA:1.20.1110.10 | - | 106 | 1028 | 0.0 |
| 26 | g1887.t1 | Gene3D | G3DSA:3.40.50.1000 | - | 383 | 767 | 0.0 |
| 27 | g1887.t1 | Gene3D | G3DSA:3.40.1110.10 | - | 396 | 606 | 0.0 |
| 58 | g1887.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 44 | - |
| 59 | g1887.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 26 | 44 | - |
| 5 | g1887.t1 | PANTHER | PTHR43294:SF16 | SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA | 5 | 1035 | 0.0 |
| 6 | g1887.t1 | PANTHER | PTHR43294 | SODIUM/POTASSIUM-TRANSPORTING ATPASE SUBUNIT ALPHA | 5 | 1035 | 0.0 |
| 7 | g1887.t1 | PRINTS | PR00121 | Sodium/potassium-transporting ATPase signature | 115 | 129 | 2.6E-110 |
| 12 | g1887.t1 | PRINTS | PR00121 | Sodium/potassium-transporting ATPase signature | 142 | 162 | 2.6E-110 |
| 21 | g1887.t1 | PRINTS | PR00119 | P-type cation-transporting ATPase superfamily signature | 226 | 240 | 1.3E-42 |
| 15 | g1887.t1 | PRINTS | PR00121 | Sodium/potassium-transporting ATPase signature | 306 | 328 | 2.6E-110 |
| 9 | g1887.t1 | PRINTS | PR00121 | Sodium/potassium-transporting ATPase signature | 379 | 400 | 2.6E-110 |
| 20 | g1887.t1 | PRINTS | PR00119 | P-type cation-transporting ATPase superfamily signature | 386 | 400 | 1.3E-42 |
| 11 | g1887.t1 | PRINTS | PR00121 | Sodium/potassium-transporting ATPase signature | 517 | 535 | 2.6E-110 |
| 19 | g1887.t1 | PRINTS | PR00119 | P-type cation-transporting ATPase superfamily signature | 599 | 610 | 1.3E-42 |
| 18 | g1887.t1 | PRINTS | PR00119 | P-type cation-transporting ATPase superfamily signature | 621 | 631 | 1.3E-42 |
| 17 | g1887.t1 | PRINTS | PR00119 | P-type cation-transporting ATPase superfamily signature | 727 | 746 | 1.3E-42 |
| 16 | g1887.t1 | PRINTS | PR00119 | P-type cation-transporting ATPase superfamily signature | 751 | 763 | 1.3E-42 |
| 14 | g1887.t1 | PRINTS | PR00121 | Sodium/potassium-transporting ATPase signature | 799 | 820 | 2.6E-110 |
| 13 | g1887.t1 | PRINTS | PR00121 | Sodium/potassium-transporting ATPase signature | 866 | 886 | 2.6E-110 |
| 8 | g1887.t1 | PRINTS | PR00121 | Sodium/potassium-transporting ATPase signature | 928 | 948 | 2.6E-110 |
| 10 | g1887.t1 | PRINTS | PR00121 | Sodium/potassium-transporting ATPase signature | 962 | 986 | 2.6E-110 |
| 4 | g1887.t1 | Pfam | PF00690 | Cation transporter/ATPase, N-terminus | 55 | 123 | 7.8E-18 |
| 2 | g1887.t1 | Pfam | PF00122 | E1-E2 ATPase | 176 | 366 | 1.4E-43 |
| 3 | g1887.t1 | Pfam | PF13246 | Cation transport ATPase (P-type) | 438 | 533 | 7.7E-22 |
| 1 | g1887.t1 | Pfam | PF00689 | Cation transporting ATPase, C-terminus | 811 | 1019 | 9.2E-44 |
| 30 | g1887.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 107 | - |
| 43 | g1887.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 108 | 130 | - |
| 38 | g1887.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 131 | 141 | - |
| 41 | g1887.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 142 | 161 | - |
| 32 | g1887.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 162 | 302 | - |
| 39 | g1887.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 303 | 327 | - |
| 37 | g1887.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 328 | 332 | - |
| 40 | g1887.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 333 | 356 | - |
| 34 | g1887.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 357 | 864 | - |
| 44 | g1887.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 865 | 884 | - |
| 36 | g1887.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 885 | 925 | - |
| 42 | g1887.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 926 | 944 | - |
| 31 | g1887.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 945 | 963 | - |
| 45 | g1887.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 964 | 985 | - |
| 35 | g1887.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 986 | 996 | - |
| 46 | g1887.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 997 | 1013 | - |
| 33 | g1887.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1014 | 1035 | - |
| 57 | g1887.t1 | ProSitePatterns | PS00154 | E1-E2 ATPases phosphorylation site. | 388 | 394 | - |
| 63 | g1887.t1 | SFLD | SFLDF00027 | p-type atpase | 367 | 779 | 0.0 |
| 64 | g1887.t1 | SFLD | SFLDS00003 | Haloacid Dehalogenase | 367 | 779 | 0.0 |
| 56 | g1887.t1 | SMART | SM00831 | Cation_ATPase_N_a_2 | 54 | 128 | 2.3E-25 |
| 23 | g1887.t1 | SUPERFAMILY | SSF81665 | Calcium ATPase, transmembrane domain M | 53 | 1025 | 2.35E-130 |
| 24 | g1887.t1 | SUPERFAMILY | SSF81653 | Calcium ATPase, transduction domain A | 178 | 284 | 2.22E-26 |
| 22 | g1887.t1 | SUPERFAMILY | SSF81660 | Metal cation-transporting ATPase, ATP-binding domain N | 395 | 607 | 8.17E-69 |
| 25 | g1887.t1 | SUPERFAMILY | SSF56784 | HAD-like | 595 | 776 | 8.95E-41 |
| 62 | g1887.t1 | TIGRFAM | TIGR01106 | ATPase-IIC_X-K: Na,H/K antiporter P-type ATPase, alpha subunit | 39 | 1035 | 0.0 |
| 61 | g1887.t1 | TIGRFAM | TIGR01494 | ATPase_P-type: HAD ATPase, P-type, family IC | 148 | 416 | 9.0E-43 |
| 60 | g1887.t1 | TIGRFAM | TIGR01494 | ATPase_P-type: HAD ATPase, P-type, family IC | 701 | 817 | 1.5E-31 |
| 54 | g1887.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 107 | 129 | - |
| 53 | g1887.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 142 | 161 | - |
| 52 | g1887.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 302 | 324 | - |
| 50 | g1887.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 334 | 356 | - |
| 51 | g1887.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 864 | 886 | - |
| 55 | g1887.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 925 | 944 | - |
| 49 | g1887.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 964 | 986 | - |
| 48 | g1887.t1 | 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
- This transcript has been annotated with K01539 (sodium/potassium-transporting ATPase subunit alpha)
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.
