Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Potassium channel subfamily K member 10.

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 g16221 g16221.t2 TSS g16221.t2 8641662 8641662
chr_4 g16221 g16221.t2 isoform g16221.t2 8641829 8646265
chr_4 g16221 g16221.t2 exon g16221.t2.exon1 8641829 8642071
chr_4 g16221 g16221.t2 cds g16221.t2.CDS1 8641829 8642071
chr_4 g16221 g16221.t2 exon g16221.t2.exon2 8645046 8645361
chr_4 g16221 g16221.t2 cds g16221.t2.CDS2 8645046 8645361
chr_4 g16221 g16221.t2 exon g16221.t2.exon3 8645431 8645586
chr_4 g16221 g16221.t2 cds g16221.t2.CDS3 8645431 8645586
chr_4 g16221 g16221.t2 exon g16221.t2.exon4 8645652 8645837
chr_4 g16221 g16221.t2 cds g16221.t2.CDS4 8645652 8645837
chr_4 g16221 g16221.t2 exon g16221.t2.exon5 8645897 8645941
chr_4 g16221 g16221.t2 cds g16221.t2.CDS5 8645897 8645941
chr_4 g16221 g16221.t2 exon g16221.t2.exon6 8646083 8646265
chr_4 g16221 g16221.t2 cds g16221.t2.CDS6 8646083 8646126
chr_4 g16221 g16221.t2 TTS g16221.t2 8646693 8646693

Sequences

>g16221.t2 Gene=g16221 Length=1129
ATGGGCGATGATATTTTTATAAAACGTGTAGATTTTGAAGTAAATAATAACGAACCAAAT
ACAGTAATTCCAAATGGTCATGAAATGTTGACAGATGATGTAGAAAATTTGAATAAACCT
GGACCACCACCAACATGTTGTGGCAAATTTTTATATTATCTTGATAAATTTGGGATCAAA
GCAGCACTAAGTCATGTTGGGTTGCTTTTAGGATTAGCTCTTTATTGTTATGCAGGCGGA
TGGGTGTTTGTCCAACTAGAACATCCTCCAATGAAAGAAAATGAATATGAACTAAGAAAT
AACATTTCGATCAGCCGTTCTGAATTTATTCAAATAATTATTGATGCACACAATGATAAT
GATTTAAATGAGAATTTTATATCAGAAAAATTACAAGAATATGAAATGGTAGCACAAGCG
GCAGTTGAAGGAAATTTGCAGCTTACAAATACAGCTGGGAATATTACAAATACAAATGAT
ATTGCATTTCCAGTGCAATCTGAAAAATGGACATTAATGCAAGCAATCTTTTTTGCATCA
ACAATTTGCACAACAATTGGTTATGGAAATATTGCACCAGAAACTTTCGAAGGACGATTA
TTTTGCATCATCTTTGCTATTTTTGGGCTCCCATTTACGCTCACTGTAATTGCTGATTAT
GGTAGCTTATTTGCTAATTCAGTATCAGCTGTAGCTAAAAAATGTAAAACATTCAAATTT
TGCTCAAAAGATTCAAAATTTAGAACATTCAAAGGTCGAAAGTGGTTATATGCTATTGGA
GCTGTAATTTTCTTAGGATTTTATTTATCAGCTGGTGCAGCAGTTTTTGAACAATGGGAG
CATTGGACATTTTTTGAAGGCTTTTATTTTAGTTTTATCACTATGACAACTATTGGTTTA
GGTGATCTTGTTCCAGGTGAAAAACCAATGTTAATTTGCACCGTAAGTCTACATTCTTAT
TGGATTAGCATTAACAAGTACAATTCTTGAACTCGTAAGACGGCAATATGTTCAAAGCTG
GCAAAAATTACAACAATTAAAACTTGGTTCTTTTGCTGACTCATTGCGACGTCTAGGTGA
ATCTCATGGTGCTATTGATGTCAATGATTTACGTTCAATTCTCTCAGTT

>g16221.t2 Gene=g16221 Length=329
MGDDIFIKRVDFEVNNNEPNTVIPNGHEMLTDDVENLNKPGPPPTCCGKFLYYLDKFGIK
AALSHVGLLLGLALYCYAGGWVFVQLEHPPMKENEYELRNNISISRSEFIQIIIDAHNDN
DLNENFISEKLQEYEMVAQAAVEGNLQLTNTAGNITNTNDIAFPVQSEKWTLMQAIFFAS
TICTTIGYGNIAPETFEGRLFCIIFAIFGLPFTLTVIADYGSLFANSVSAVAKKCKTFKF
CSKDSKFRTFKGRKWLYAIGAVIFLGFYLSAGAAVFEQWEHWTFFEGFYFSFITMTTIGL
GDLVPGEKPMLICTVSLHSYWISINKYNS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g16221.t2 Gene3D G3DSA:1.10.287.70 - 61 326 1.2E-61
3 g16221.t2 PANTHER PTHR11003 POTASSIUM CHANNEL, SUBFAMILY K 100 315 4.6E-53
4 g16221.t2 PANTHER PTHR11003:SF142 TWIK FAMILY OF POTASSIUM CHANNELS PROTEIN 7-LIKE PROTEIN 100 315 4.6E-53
5 g16221.t2 PRINTS PR01333 Two pore domain K+ channel signature 181 209 3.8E-16
6 g16221.t2 PRINTS PR01333 Two pore domain K+ channel signature 296 305 3.8E-16
1 g16221.t2 Pfam PF07885 Ion channel 167 224 8.8E-16
2 g16221.t2 Pfam PF07885 Ion channel 264 315 4.2E-14
19 g16221.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 61 -
24 g16221.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 62 84 -
15 g16221.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 85 171 -
23 g16221.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 172 192 -
20 g16221.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 193 197 -
21 g16221.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 198 218 -
17 g16221.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 219 254 -
22 g16221.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 255 276 -
18 g16221.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 277 281 -
25 g16221.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 282 301 -
16 g16221.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 302 329 -
13 g16221.t2 SUPERFAMILY SSF81324 Voltage-gated potassium channels 62 230 2.75E-21
12 g16221.t2 SUPERFAMILY SSF81324 Voltage-gated potassium channels 248 309 2.22E-15
9 g16221.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 62 84 -
11 g16221.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 170 192 -
7 g16221.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 199 218 -
8 g16221.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 255 277 -
10 g16221.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 284 306 -

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