Gene loci information

Transcript annotation

  • This transcript has been annotated as Open rectifier potassium channel protein 1.

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_4 g17291 g17291.t2 TSS g17291.t2 13040427 13040427
chr_4 g17291 g17291.t2 isoform g17291.t2 13040611 13043303
chr_4 g17291 g17291.t2 exon g17291.t2.exon1 13040611 13040752
chr_4 g17291 g17291.t2 cds g17291.t2.CDS1 13040611 13040752
chr_4 g17291 g17291.t2 exon g17291.t2.exon2 13041363 13041422
chr_4 g17291 g17291.t2 cds g17291.t2.CDS2 13041363 13041422
chr_4 g17291 g17291.t2 exon g17291.t2.exon3 13041489 13041605
chr_4 g17291 g17291.t2 cds g17291.t2.CDS3 13041489 13041605
chr_4 g17291 g17291.t2 exon g17291.t2.exon4 13041664 13041729
chr_4 g17291 g17291.t2 cds g17291.t2.CDS4 13041664 13041729
chr_4 g17291 g17291.t2 exon g17291.t2.exon5 13041795 13041850
chr_4 g17291 g17291.t2 cds g17291.t2.CDS5 13041795 13041850
chr_4 g17291 g17291.t2 exon g17291.t2.exon6 13041911 13042071
chr_4 g17291 g17291.t2 cds g17291.t2.CDS6 13041911 13042071
chr_4 g17291 g17291.t2 exon g17291.t2.exon7 13042221 13042273
chr_4 g17291 g17291.t2 cds g17291.t2.CDS7 13042221 13042273
chr_4 g17291 g17291.t2 exon g17291.t2.exon8 13042339 13042440
chr_4 g17291 g17291.t2 cds g17291.t2.CDS8 13042339 13042440
chr_4 g17291 g17291.t2 exon g17291.t2.exon9 13042499 13042538
chr_4 g17291 g17291.t2 cds g17291.t2.CDS9 13042499 13042538
chr_4 g17291 g17291.t2 exon g17291.t2.exon10 13042602 13042749
chr_4 g17291 g17291.t2 cds g17291.t2.CDS10 13042602 13042749
chr_4 g17291 g17291.t2 exon g17291.t2.exon11 13042842 13043303
chr_4 g17291 g17291.t2 cds g17291.t2.CDS11 13042842 13043303
chr_4 g17291 g17291.t2 TTS g17291.t2 NA NA

Sequences

>g17291.t2 Gene=g17291 Length=1407
ATGAGTCCAAAGCAATTTATTGCACTTTTATTATTTTATATTTTTTATTTATTATTTGGT
GCAAGTGTTTTTTATTACACTGAACATGGATATGAAACTGGAAAAAGAGCTGATGAAAAT
GCTGCTCGTCTTGAAGTTAATGCTTTGTTATTAAATAATCTACCAAACAATACCGAACTT
AAAGAAGAAATATTAGGCAAAGTGACAGATTATTGTGGAAAATCTGTGAGGCATCCTTCA
ACAGATTCATTTGTTCCGCCTTATATTTGGTCTTTTTATCACTCATTTTATTTCTCATTT
ATTATTTGTAGTACTGTTGGTTATGGAAATATTTCACCAAGTCATTCATTTGGTCGAATT
TTTTTAATATTTTATGCAATTGTCGGATTGCCATTGCATGCAATACTTTTTGGAGTTATG
GGTAATTTTTGGGGAAAAACTTTTGTCAGAATGTATAAAAAGTACAAAGATTACAAAAAA
TCTACGGATATAAATTACAGACCCAGAAAATTAACTCTTATTGGAAAAATTGCTCTTTAT
GTCACACCTGCCATTATTTTGTTAATTTTCATACCTGCCATTTTATTCACATACTTTGAA
AGATGGGACTATGTTACATCAGTTTATTATGCTTTTGTTACTTTAACAACAATTGGTTTT
GGTGACTATGCTGCAACGTTTAGAGATTTTCAAGAGAGCACTTTTGGATATTATTTTGTA
GCTTATCAAATTTTTGTTATTTTTTGGTTTATTGCAGGAGTAAGCTATGTTGCAATGTGT
ATTGGATTTCTCATTCAAGGCTTGAAAAGTAAACAAGTCAAAAATATTGAACACAATTTG
GCTTTAAATCTCAAAGACACTCAAAAGAGACTTTGGCAAGGTATGCAACGAGATGTTGGA
TTTCTACGAAAAATTCTTAATGAAGTTAATTTTTCTAAGTACAAGCCAATTTACAAAGAT
CCTGAAGAGATCAAACAAAAATTTCGCTCAACTCGTTCACAATCATGTCCACGTTTATTC
ATTTACGATGATGAAGACGAATTTGATTATGATGAAGAAGAAATTTTAAAGTACAAAAGA
AAACGTGCAAATTCTGAAACTCATAAATTTAAACATCGAAATTCAATGTTTGTTCATACA
CATTCTGATACAGAATTAAATAAAATTGATCGACAAAAAACTTTTGAAGCGCTCAAAGCT
GAAATTGAACCGGCGGAAATTCTTGCAAAAGTTACGATTGCATTGGGAGAAATTTTGGAA
GATGAAAATAATCAAGAAGACAACAATGCAGAAGTTCAAGAAAATGAAGAAAATTTCGTG
ACTTTGATGCCAGGAGAAAACCTTTATGCTGGACGTGATCGAAGAGCTTTATCAGTTGTT
CAAATTCCTATAGAAGATTTAGTGATG

>g17291.t2 Gene=g17291 Length=469
MSPKQFIALLLFYIFYLLFGASVFYYTEHGYETGKRADENAARLEVNALLLNNLPNNTEL
KEEILGKVTDYCGKSVRHPSTDSFVPPYIWSFYHSFYFSFIICSTVGYGNISPSHSFGRI
FLIFYAIVGLPLHAILFGVMGNFWGKTFVRMYKKYKDYKKSTDINYRPRKLTLIGKIALY
VTPAIILLIFIPAILFTYFERWDYVTSVYYAFVTLTTIGFGDYAATFRDFQESTFGYYFV
AYQIFVIFWFIAGVSYVAMCIGFLIQGLKSKQVKNIEHNLALNLKDTQKRLWQGMQRDVG
FLRKILNEVNFSKYKPIYKDPEEIKQKFRSTRSQSCPRLFIYDDEDEFDYDEEEILKYKR
KRANSETHKFKHRNSMFVHTHSDTELNKIDRQKTFEALKAEIEPAEILAKVTIALGEILE
DENNQEDNNAEVQENEENFVTLMPGENLYAGRDRRALSVVQIPIEDLVM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g17291.t2 Coils Coil Coil 415 436 -
10 g17291.t2 Coils Coil Coil 464 469 -
9 g17291.t2 Gene3D G3DSA:1.10.287.70 - 3 281 2.7E-60
3 g17291.t2 PANTHER PTHR11003:SF304 OPEN RECTIFIER POTASSIUM CHANNEL PROTEIN 1 5 314 7.4E-59
4 g17291.t2 PANTHER PTHR11003 POTASSIUM CHANNEL, SUBFAMILY K 5 314 7.4E-59
6 g17291.t2 PRINTS PR01333 Two pore domain K+ channel signature 101 129 7.9E-14
5 g17291.t2 PRINTS PR01333 Two pore domain K+ channel signature 216 225 7.9E-14
2 g17291.t2 Pfam PF07885 Ion channel 89 143 7.2E-16
1 g17291.t2 Pfam PF07885 Ion channel 185 266 2.8E-12
16 g17291.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
23 g17291.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 26 -
13 g17291.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 27 86 -
22 g17291.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 87 108 -
18 g17291.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 109 119 -
24 g17291.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 120 144 -
14 g17291.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 145 176 -
21 g17291.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 177 198 -
17 g17291.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 199 203 -
20 g17291.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 204 225 -
12 g17291.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 226 236 -
19 g17291.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 237 265 -
15 g17291.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 266 469 -
8 g17291.t2 SUPERFAMILY SSF81324 Voltage-gated potassium channels 5 164 1.57E-28
7 g17291.t2 SUPERFAMILY SSF81324 Voltage-gated potassium channels 178 280 3.66E-20
30 g17291.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 26 -
29 g17291.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 88 110 -
26 g17291.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 122 144 -
28 g17291.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 177 199 -
25 g17291.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 206 228 -
27 g17291.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 243 265 -

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:0016020 membrane CC
GO:0005267 potassium channel activity MF
GO:0071805 potassium ion transmembrane transport BP

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. There were no conditions that were differentially expressed