General information for g12457.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Potassium voltage-gated channel subfamily KQT member 1.
Parent gene
- The parent gene g12457 is located on chr_1: 23844066..23857005 (+ 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_1 | g12457 | g12457.t1 | isoform | g12457.t1 | 23844066 | 23857005 |
| chr_1 | g12457 | g12457.t1 | exon | g12457.t1.exon1 | 23844066 | 23844079 |
| chr_1 | g12457 | g12457.t1 | cds | g12457.t1.CDS1 | 23844066 | 23844079 |
| chr_1 | g12457 | g12457.t1 | exon | g12457.t1.exon2 | 23847240 | 23847457 |
| chr_1 | g12457 | g12457.t1 | cds | g12457.t1.CDS2 | 23847240 | 23847457 |
| chr_1 | g12457 | g12457.t1 | exon | g12457.t1.exon3 | 23847803 | 23847978 |
| chr_1 | g12457 | g12457.t1 | cds | g12457.t1.CDS3 | 23847803 | 23847978 |
| chr_1 | g12457 | g12457.t1 | exon | g12457.t1.exon4 | 23849227 | 23849351 |
| chr_1 | g12457 | g12457.t1 | cds | g12457.t1.CDS4 | 23849227 | 23849351 |
| chr_1 | g12457 | g12457.t1 | exon | g12457.t1.exon5 | 23849469 | 23849586 |
| chr_1 | g12457 | g12457.t1 | cds | g12457.t1.CDS5 | 23849469 | 23849586 |
| chr_1 | g12457 | g12457.t1 | exon | g12457.t1.exon6 | 23849824 | 23850045 |
| chr_1 | g12457 | g12457.t1 | cds | g12457.t1.CDS6 | 23849824 | 23850045 |
| chr_1 | g12457 | g12457.t1 | exon | g12457.t1.exon7 | 23853383 | 23853605 |
| chr_1 | g12457 | g12457.t1 | cds | g12457.t1.CDS7 | 23853383 | 23853605 |
| chr_1 | g12457 | g12457.t1 | exon | g12457.t1.exon8 | 23855998 | 23856115 |
| chr_1 | g12457 | g12457.t1 | cds | g12457.t1.CDS8 | 23855998 | 23856115 |
| chr_1 | g12457 | g12457.t1 | exon | g12457.t1.exon9 | 23856203 | 23856359 |
| chr_1 | g12457 | g12457.t1 | cds | g12457.t1.CDS9 | 23856203 | 23856359 |
| chr_1 | g12457 | g12457.t1 | exon | g12457.t1.exon10 | 23856607 | 23857005 |
| chr_1 | g12457 | g12457.t1 | cds | g12457.t1.CDS10 | 23856607 | 23857005 |
| chr_1 | g12457 | g12457.t1 | TSS | g12457.t1 | NA | NA |
| chr_1 | g12457 | g12457.t1 | TTS | g12457.t1 | NA | NA |
Sequences
>g12457.t1 Gene=g12457 Length=1770
ATGTTTGGTGACAGATTTATGCTCGTATTAGTATGTTTAATATTTAGTGTATTGTCAACG
ATAGATCAATATCAAGAGTTTGCCAATGAAACGCTTTTTTGGATGGAAATATGTTTAGTT
GTATTTTTCGGCGTTGAATACATTGTGCGATTATGGTCGGCAGGATGTCGATCGAAATAT
ATGGGCTTTTGTGGTCGATTAAGGTTCATAAGAAAGCCAATTTGTATCATAGATTTAATA
GTGGTAGTTGCATCGTTGGTTGTATTAACAGTTGGCAGCAATGGACAAGTTTTTGCGACA
AGTGCTATTCGTGGCATTCGATTTCTTCAAATACTCAGAATGTTACATGTCGATAGACAA
GGTGGAACATGGCGACTACTAGGATCAGTTGTGTTTATTCATCGACAGGAATTGATAACA
ACATTGTATATTGGATTTCTGGGATTGATATTCAGCTCATATTTTGTATATTTGGCAGAA
AAAGACCATTCAGATACTTCGAAATTTCAAAGCTATGCTGACAGTCTTTGGTGGGGTGTG
ATAACAGTCACGACTATTGGATACGGTGATATTGTTCCAGAAACATGGATGGGAAAAATA
GTAGCATCGTGTTTTAGTGTATTTGCCATATCATTTTTTGCACTACCCGCTGGAATATTG
GGATCAGGCTTCGCTTTGAAAGTGCAACAAAAGCAACGTCAAAAACATTTCAACCGTCAA
ATACCAGCAGCAGCTATGTTAATACAATGCCTTTGGCGATGCTATGCCGCAGATAAGACC
TTCAACAGTGAAGCTACATGGAAAATATACGTACAAAATAATGGCAATTATGAAAATGGA
ACATCAAATGTGCTACCAACACAATTAGGCAAGACGCTGATGGTGCAGGTCGCACGACGC
TCGGCATCGGTGTTGAAGAGACGAAAATCCCGAAATCGAATGGAAGTGCCTAGTGTGGAT
CGAAACCATGAAGGACCATCACCAAATACTGGAAGTGTCAATGACATGCCGCATACACCG
AATATTGTCGAATCACAAATGTCAAAAGACTCTGAAAACGAAGTCATTTATTATATGGAC
GAACCACAAGGAGCAGGTCGCATGAAACGGCAGCCATTCATTAGTCAAACGAGCTCAGTG
ACGGAGGCACCAAGTGATGATGTTGAAGCAGAGCAAGAGGGTGACGAGGATGTTGAGCCT
GCACGTGTTACACAATTAACGGAAGCTCATCGTAATGCAATTCGTGCTATAAGAAAAATT
AAGTATTTCGTTGCGAGAAGAAAATTTCAACAAGCTAGAAAACCTTATGATGTACGTGAT
GTAATTGAACAATATAGTCAAGGACATTTAAATATGATGGTTAGAATTAAGGAACTACAA
AGACGCTTAGATCAAACACTCGGTAAACCAGGCTCATATCTTGCTGGCATCGATCGTGTT
GGTAATGTGAAACCAATGACTGTGGGTGCACGAATGTATCGTGTTGAGCAACAGCTGAGT
TCGATGGATAGAAAATTAGATCAATTGGTGCATGCAATCAACAATTTAGCAATTCAACAG
CAAAAAATGCAACCACAACCTGTGCCATCAACTCAACAATTCTTTCCTTCTGGACCACTC
GTTTTACCGCCTACATTCGATAATTTTTGTAACACACAATATCAGCCAACTATTGCGCAA
CAATTTCAAGGATTACAGCTGCCTGCTGGTCCATCACAATCAAACACTCCAACAACATCA
ATGCATCCGCATCTCGAAGATGATGTATAA
>g12457.t1 Gene=g12457 Length=589
MFGDRFMLVLVCLIFSVLSTIDQYQEFANETLFWMEICLVVFFGVEYIVRLWSAGCRSKY
MGFCGRLRFIRKPICIIDLIVVVASLVVLTVGSNGQVFATSAIRGIRFLQILRMLHVDRQ
GGTWRLLGSVVFIHRQELITTLYIGFLGLIFSSYFVYLAEKDHSDTSKFQSYADSLWWGV
ITVTTIGYGDIVPETWMGKIVASCFSVFAISFFALPAGILGSGFALKVQQKQRQKHFNRQ
IPAAAMLIQCLWRCYAADKTFNSEATWKIYVQNNGNYENGTSNVLPTQLGKTLMVQVARR
SASVLKRRKSRNRMEVPSVDRNHEGPSPNTGSVNDMPHTPNIVESQMSKDSENEVIYYMD
EPQGAGRMKRQPFISQTSSVTEAPSDDVEAEQEGDEDVEPARVTQLTEAHRNAIRAIRKI
KYFVARRKFQQARKPYDVRDVIEQYSQGHLNMMVRIKELQRRLDQTLGKPGSYLAGIDRV
GNVKPMTVGARMYRVEQQLSSMDRKLDQLVHAINNLAIQQQKMQPQPVPSTQQFFPSGPL
VLPPTFDNFCNTQYQPTIAQQFQGLQLPAGPSQSNTPTTSMHPHLEDDV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g12457.t1 | Gene3D | G3DSA:1.10.287.70 | - | 4 | 227 | 7.0E-57 |
| 37 | g12457.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 304 | 333 | - |
| 38 | g12457.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 366 | 399 | - |
| 39 | g12457.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 370 | 385 | - |
| 36 | g12457.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 570 | 589 | - |
| 3 | g12457.t1 | PANTHER | PTHR11537:SF144 | POTASSIUM VOLTAGE-GATED CHANNEL, KQT-LIKE SUBFAMILY, MEMBER 1-RELATED | 4 | 522 | 1.5E-258 |
| 4 | g12457.t1 | PANTHER | PTHR11537 | VOLTAGE-GATED POTASSIUM CHANNEL | 4 | 522 | 1.5E-258 |
| 7 | g12457.t1 | PRINTS | PR00169 | Potassium channel signature | 34 | 57 | 5.0E-20 |
| 11 | g12457.t1 | PRINTS | PR01459 | KCNQ voltage-gated potassium channel family signature | 42 | 61 | 2.3E-25 |
| 12 | g12457.t1 | PRINTS | PR01459 | KCNQ voltage-gated potassium channel family signature | 62 | 81 | 2.3E-25 |
| 6 | g12457.t1 | PRINTS | PR00169 | Potassium channel signature | 108 | 134 | 5.0E-20 |
| 10 | g12457.t1 | PRINTS | PR01459 | KCNQ voltage-gated potassium channel family signature | 124 | 143 | 2.3E-25 |
| 9 | g12457.t1 | PRINTS | PR00169 | Potassium channel signature | 137 | 160 | 5.0E-20 |
| 5 | g12457.t1 | PRINTS | PR00169 | Potassium channel signature | 169 | 191 | 5.0E-20 |
| 8 | g12457.t1 | PRINTS | PR00169 | Potassium channel signature | 198 | 224 | 5.0E-20 |
| 2 | g12457.t1 | Pfam | PF00520 | Ion transport protein | 7 | 227 | 8.4E-28 |
| 1 | g12457.t1 | Pfam | PF03520 | KCNQ voltage-gated potassium channel | 375 | 512 | 7.5E-29 |
| 22 | g12457.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 23 | - |
| 23 | g12457.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 24 | g12457.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 18 | - |
| 30 | g12457.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 19 | 23 | - |
| 19 | g12457.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 24 | 32 | - |
| 27 | g12457.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 33 | 53 | - |
| 18 | g12457.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 54 | 73 | - |
| 25 | g12457.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 74 | 92 | - |
| 20 | g12457.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 93 | 137 | - |
| 28 | g12457.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 138 | 159 | - |
| 17 | g12457.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 160 | 170 | - |
| 29 | g12457.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 171 | 188 | - |
| 21 | g12457.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 189 | 199 | - |
| 26 | g12457.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 200 | 226 | - |
| 16 | g12457.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 227 | 589 | - |
| 13 | g12457.t1 | SUPERFAMILY | SSF81324 | Voltage-gated potassium channels | 6 | 225 | 9.62E-45 |
| 14 | g12457.t1 | SignalP_EUK | SignalP-TM | SignalP-TM | 1 | 19 | - |
| 33 | g12457.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 21 | - |
| 32 | g12457.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 31 | 53 | - |
| 35 | g12457.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 74 | 93 | - |
| 31 | g12457.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 139 | 158 | - |
| 34 | g12457.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 204 | 226 | - |
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:0055085 | transmembrane transport | BP |
| GO:0006813 | potassium ion transport | BP |
| GO:0005249 | voltage-gated potassium channel activity | MF |
| GO:0005216 | ion channel activity | MF |
| GO:0006811 | ion transport | BP |
| GO:0008076 | voltage-gated potassium channel complex | CC |
KEGG
Orthology
- This transcript has been annotated with K04926 (potassium voltage-gated channel KQT-like subfamily member 1)
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.
