General information for g11665.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Bumetanide-sensitive sodium-(potassium)-chloride cotransporter.
Parent gene
- The parent gene g11665 is located on chr_1: 17705578..17711136 (+ 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 | g11665 | g11665.t1 | isoform | g11665.t1 | 17705578 | 17711136 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon1 | 17705578 | 17705921 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS1 | 17705578 | 17705921 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon2 | 17705977 | 17706091 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS2 | 17705977 | 17706091 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon3 | 17707276 | 17707406 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS3 | 17707276 | 17707406 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon4 | 17707479 | 17707857 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS4 | 17707479 | 17707857 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon5 | 17707918 | 17708032 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS5 | 17707918 | 17708032 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon6 | 17708096 | 17708256 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS6 | 17708096 | 17708256 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon7 | 17708324 | 17708724 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS7 | 17708324 | 17708724 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon8 | 17708788 | 17708889 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS8 | 17708788 | 17708889 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon9 | 17708964 | 17709799 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS9 | 17708964 | 17709799 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon10 | 17710037 | 17710081 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS10 | 17710037 | 17710081 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon11 | 17710205 | 17710281 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS11 | 17710205 | 17710281 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon12 | 17710337 | 17710772 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS12 | 17710337 | 17710772 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon13 | 17710826 | 17710926 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS13 | 17710826 | 17710926 |
| chr_1 | g11665 | g11665.t1 | exon | g11665.t1.exon14 | 17710993 | 17711136 |
| chr_1 | g11665 | g11665.t1 | cds | g11665.t1.CDS14 | 17710993 | 17711136 |
| chr_1 | g11665 | g11665.t1 | TTS | g11665.t1 | 17711777 | 17711777 |
| chr_1 | g11665 | g11665.t1 | TSS | g11665.t1 | NA | NA |
Sequences
>g11665.t1 Gene=g11665 Length=3387
ATGGCTGCAAAAGCAGAGAATTCCAATTCATTAGAACTCAGTTCTATGACACGATCGTCT
TCTGCTAATCGATTTCAAGTAAATCCAGTGAATAAGGATTCAAATGGTACTAACAATCAA
CATGAAGGTAATGAGGACGAAGTAGATCATTTCAGTGAAGATACTGAAATGGTTACACAG
AGAAGAACATCACGCATTCAATCACTTAAAAGTAGCTTCAGAGATTCCGAAAAGAAGCGA
AAAGAAAGCGTAACACGATTTAAAGTCAGCGATGAAAATTCTGATGAAGATGAAAATCTT
CTCGATGGAAATGAATATGACACGAAATATGGAAGAAGCTTTAGGCATTTTACACGTGAA
GCACTTCCACGTTTAGACAATTATCGAAATATTATGTCATTACAAGCTGGAACTCGACCG
ACACTCGAAGAGCTTCACAATGCATCGATAACAAATAAGGCACAAACATTTTCATCTAAT
GTAGATCCAGAAGGATTAACGGAAGGTGTTATCAAATTTGGATGGATCAAAGGCGTATTG
ATGAGATGTTTATTGAATATTTGGGGTGTTATGCTTTTCTTGCGACTTAGTTGGGTAGTT
GGTCAAGCAGGCATAATGCAGGGTCTAATTTTAATTTCAATAACAACATGTGTGACAGCA
ATTACTGCTTTAAGTATGAGCGCTATCAGCACAAATGGCATAATCAAGGGTGGTGGTACA
TATTTCATGATATCAAGAAGTCTTGGACCTGAATTTGGTGGCTCGATTGGATTAATTTTT
TCATTAGCAAATGCTGTTGCTGTGGCCATGTATATTGTTGGATTTTGTGAGTCGCTTCTC
GATCTTTTGTGGAACTCTTTCCAAATTCAAATATTTGATGGCGGTGTACAAGATACAAGA
ATTATTGGCAGCATTACTGTTGTCGTTTTACTTATTATTGTCGTTATCGGAATGGAATGG
GAAGCAAAAGCACAAATTGTATTATTATTTATATTACTCGCTGCTATTGGAGATTTCGTT
ATCGGATCAATATATGGACCTAAAAGTGACGAAGATAGAGCTAAGGGATTTTTAGGCTAT
AACATGACTTTATTCAAAACCAATTTCTTCGAAGATTATCGGTATGTGGACAAGACACAG
ACGAAAAAACATGACTTCTTCTCGGTCTTTTCAATCTTCTTTCCTGCTGCTACTGGAATT
TTAGCTGGTGCTAATATTTCTGGCGATTTAAAAGATCCACAAAAGGCAATTCCAAAAGGA
ACTTTACTCGCAATTTTTCTCACGACATTGTCGTATCTCGGAATGGCAGTTATGGCCGGA
AGTTGTGTGGCACGTGATGCAACGGGAAATGTTACAGATTTAGCTACTGGAGAATTTCTT
GATTGTGTAAATAAGACATGCGAATACGGTCTACAAAATTCATTTCAAGTCATTGAGCTA
GTTTCATTATTTGGACCATTGATCTATGCGGGTTGTTTTGCAGCTACTCTCAGCTCCGCA
CTCGCTTCATTAGTTTCAGCTCCAAAAGTGTTTCAAGCACTTTGTAAAGATGAACTTTAT
CCGAAAATAAAATGGTTTGCAAAAGGCTTTGGTAAAAACAATGAACCAGTACGTGGCTAT
GTACTGACATTTATTATTGCCATTGGCTTTATTTTAGTTGGAGAATTGAATGCGATTGCT
CCATTAATCTCGAATTTCTTCCTCGCTGCATATACTCTTATTAATTTTAGCACATTTCAT
GCTAGCTTGGCAAAACCAATTGGATGGAGACCAAAGTTCAAGTATTATAATATGTGGTTG
AGTCTTTTGGGCGCCATTCTGTGTGTAGCTGTTATGTTTTTGATCTCATGGATAACGGCA
CTCCTTACATTCGCAATGGTGTTGTCGCTTTATTTGATTGTTTCTTATCGCAAACCAGAT
GTTAATTGGGGTAGTTCCACACAAGCACAGACTTATAAGAATGCATTAATGAGTGTACAA
CAATTAAATTATGTTGAGGAACATGTGAAAAATTATCGTCCTCAGATTCTTGTACTCTCA
GGACAACCAAATATTCGACCGGAATTGGTTACATTTGGCTATTTACTTACTAAAAAATTA
TCAATGCTTGTTTGTGGCCACATCATGAAAACACAGATATCTCAAAAATATCGAAATTAT
TTGCAACGAAAATCAATCGATTTCTTCAAACGTCATAAGATCAAGGCATTCTATTCATTA
GTTGATGACGATGACTTTGAAACAGGTGCACGTGCTTTAATGCAAGCTTCGGGGATCGGA
AAACTAAAACCGAATATTCTGTTGATGGGATATAAACATGATTGGCAAACTTGCGATAAA
GTCGATCTTGAACGTTACTTTAATGTTGTTCACAAAGCATTTGATATGTACTTGGCTGTC
GCAATTTTAAGAGTTCCAAATGGTCTTGATTATTCACATATTTTGGGCGATGAAGCACCA
CGACATATTATGGATGCTCCTAAAACATTGACAAGCAACGATAGTTCCACTGACTTAGCT
TCAAAAGATAAAAATACTTCGTTTCATGGCAGTTGTGATTCATTAAGTCGAAATATTTCA
CAAGATGAGAAGAATGTTGTAAATAAGAAACCAGTAATGAAATGCAAAGCAAGTAGTACG
AGTGATCTAGCAAACAATGTTTCTAATGCTCCTGATCCTATTGATATCAAACGAAAGCTT
TTGAATTCAACACCTTCAAAGTCTTCAGCAAAGAAACTTGAAAATGATCCTTCATTGTTG
TATAGAGGTGCAGGTGGTGTTGAATTACCAAAGGAAATAATAGATGAATTAACACGTTTC
ACTAAAAAGCAAAGAGCAGATGCAGTAATTGATGTTTGGTGGCTTTATGACGATGGTGGT
CTTACTTTGCTTCTTCCTTATATAATTAGCACACGAAGAAACTGGAATGCATGCCGATTA
CGTGTATTTGCTTTAGCAAATAAGAATTCTGAATTGGAATTTGAACAGAGATCAATGGCT
AGTTTATTATCTAAATTTCGCATTGATTATTCAGATTTGATTCTTTTGCCTGATATCATC
AAGAAGCCGGGTGAATCAACTGTTAATTTTTTCAATGATTTGATTAAAAACTTTATTTCA
ACAAATGATGATGGAGATGATTCTTTAATTACAAGTTCAGAACTGATTGCAGTGCAAGAT
AAAACAAACAGACATTTAAGACTCCGCGAGTATCTTCTTGAGCATTCCATTAAATCAGAT
TTGGTTGTTATGACATTACCTATGCCTCGAAAGAATATCATCAAAGCATCCCATTATATG
GCTTGGTTGGAAGCACTCTCTAAAGATCTTCCACCATTCCTTTTTGTTCGCGGCAATCAA
CAATCAGTTTTGACATTTTATTCTTAA
>g11665.t1 Gene=g11665 Length=1128
MAAKAENSNSLELSSMTRSSSANRFQVNPVNKDSNGTNNQHEGNEDEVDHFSEDTEMVTQ
RRTSRIQSLKSSFRDSEKKRKESVTRFKVSDENSDEDENLLDGNEYDTKYGRSFRHFTRE
ALPRLDNYRNIMSLQAGTRPTLEELHNASITNKAQTFSSNVDPEGLTEGVIKFGWIKGVL
MRCLLNIWGVMLFLRLSWVVGQAGIMQGLILISITTCVTAITALSMSAISTNGIIKGGGT
YFMISRSLGPEFGGSIGLIFSLANAVAVAMYIVGFCESLLDLLWNSFQIQIFDGGVQDTR
IIGSITVVVLLIIVVIGMEWEAKAQIVLLFILLAAIGDFVIGSIYGPKSDEDRAKGFLGY
NMTLFKTNFFEDYRYVDKTQTKKHDFFSVFSIFFPAATGILAGANISGDLKDPQKAIPKG
TLLAIFLTTLSYLGMAVMAGSCVARDATGNVTDLATGEFLDCVNKTCEYGLQNSFQVIEL
VSLFGPLIYAGCFAATLSSALASLVSAPKVFQALCKDELYPKIKWFAKGFGKNNEPVRGY
VLTFIIAIGFILVGELNAIAPLISNFFLAAYTLINFSTFHASLAKPIGWRPKFKYYNMWL
SLLGAILCVAVMFLISWITALLTFAMVLSLYLIVSYRKPDVNWGSSTQAQTYKNALMSVQ
QLNYVEEHVKNYRPQILVLSGQPNIRPELVTFGYLLTKKLSMLVCGHIMKTQISQKYRNY
LQRKSIDFFKRHKIKAFYSLVDDDDFETGARALMQASGIGKLKPNILLMGYKHDWQTCDK
VDLERYFNVVHKAFDMYLAVAILRVPNGLDYSHILGDEAPRHIMDAPKTLTSNDSSTDLA
SKDKNTSFHGSCDSLSRNISQDEKNVVNKKPVMKCKASSTSDLANNVSNAPDPIDIKRKL
LNSTPSKSSAKKLENDPSLLYRGAGGVELPKEIIDELTRFTKKQRADAVIDVWWLYDDGG
LTLLLPYIISTRRNWNACRLRVFALANKNSELEFEQRSMASLLSKFRIDYSDLILLPDII
KKPGESTVNFFNDLIKNFISTNDDGDDSLITSSELIAVQDKTNRHLRLREYLLEHSIKSD
LVVMTLPMPRKNIIKASHYMAWLEALSKDLPPFLFVRGNQQSVLTFYS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11665.t1 | Gene3D | G3DSA:1.20.1740.10 | - | 177 | 657 | 3.0E-36 |
| 44 | g11665.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 98 | - |
| 45 | g11665.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 7 | 38 | - |
| 46 | g11665.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 39 | 60 | - |
| 43 | g11665.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 71 | 94 | - |
| 3 | g11665.t1 | PANTHER | PTHR11827:SF48 | GH09711P | 60 | 1127 | 0.0 |
| 4 | g11665.t1 | PANTHER | PTHR11827 | SOLUTE CARRIER FAMILY 12, CATION COTRANSPORTERS | 60 | 1127 | 0.0 |
| 6 | g11665.t1 | PRINTS | PR01207 | Na-K-Cl co-transporter family signature | 234 | 242 | 2.9E-6 |
| 5 | g11665.t1 | PRINTS | PR01207 | Na-K-Cl co-transporter family signature | 467 | 477 | 2.9E-6 |
| 7 | g11665.t1 | PRINTS | PR01207 | Na-K-Cl co-transporter family signature | 621 | 632 | 2.9E-6 |
| 1 | g11665.t1 | Pfam | PF00324 | Amino acid permease | 178 | 677 | 2.0E-140 |
| 2 | g11665.t1 | Pfam | PF03522 | Solute carrier family 12 | 686 | 1128 | 1.1E-157 |
| 13 | g11665.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 178 | - |
| 21 | g11665.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 179 | 198 | - |
| 16 | g11665.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 199 | 209 | - |
| 31 | g11665.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 210 | 235 | - |
| 10 | g11665.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 236 | 255 | - |
| 24 | g11665.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 256 | 280 | - |
| 18 | g11665.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 281 | 299 | - |
| 29 | g11665.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 300 | 320 | - |
| 14 | g11665.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 321 | 326 | - |
| 30 | g11665.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 327 | 345 | - |
| 17 | g11665.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 346 | 385 | - |
| 28 | g11665.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 386 | 408 | - |
| 9 | g11665.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 409 | 419 | - |
| 26 | g11665.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 420 | 440 | - |
| 20 | g11665.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 441 | 486 | - |
| 22 | g11665.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 487 | 507 | - |
| 12 | g11665.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 508 | 539 | - |
| 27 | g11665.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 540 | 560 | - |
| 15 | g11665.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 561 | 565 | - |
| 25 | g11665.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 566 | 587 | - |
| 11 | g11665.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 588 | 598 | - |
| 23 | g11665.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 599 | 632 | - |
| 19 | g11665.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 633 | 1128 | - |
| 47 | g11665.t1 | TIGRFAM | TIGR00930 | 2a30: K-Cl cotransporter | 159 | 1128 | 0.0 |
| 35 | g11665.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 183 | 205 | - |
| 38 | g11665.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 209 | 231 | - |
| 37 | g11665.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 252 | 274 | - |
| 41 | g11665.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 301 | 318 | - |
| 33 | g11665.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 325 | 347 | - |
| 40 | g11665.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 386 | 408 | - |
| 32 | g11665.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 421 | 443 | - |
| 42 | g11665.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 483 | 505 | - |
| 34 | g11665.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 536 | 553 | - |
| 36 | g11665.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 557 | 579 | - |
| 39 | g11665.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 599 | 621 | - |
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:0016021 | integral component of membrane | CC |
| GO:0015377 | cation:chloride symporter activity | MF |
| GO:0006811 | ion transport | BP |
| GO:0022857 | transmembrane transporter activity | MF |
KEGG
Orthology
- This transcript has been annotated with K10951 (solute carrier family 12 (sodium/potassium/chloride transporter), member 2)
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.
