General information for g10502.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 g10502 is located on chr_1: 10257406..10261178 (+ 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 | g10502 | g10502.t1 | TSS | g10502.t1 | 10257206 | 10257206 |
| chr_1 | g10502 | g10502.t1 | isoform | g10502.t1 | 10257406 | 10261178 |
| chr_1 | g10502 | g10502.t1 | exon | g10502.t1.exon1 | 10257406 | 10257560 |
| chr_1 | g10502 | g10502.t1 | cds | g10502.t1.CDS1 | 10257406 | 10257560 |
| chr_1 | g10502 | g10502.t1 | exon | g10502.t1.exon2 | 10257622 | 10257718 |
| chr_1 | g10502 | g10502.t1 | cds | g10502.t1.CDS2 | 10257622 | 10257718 |
| chr_1 | g10502 | g10502.t1 | exon | g10502.t1.exon3 | 10257973 | 10258896 |
| chr_1 | g10502 | g10502.t1 | cds | g10502.t1.CDS3 | 10257973 | 10258896 |
| chr_1 | g10502 | g10502.t1 | exon | g10502.t1.exon4 | 10258956 | 10259342 |
| chr_1 | g10502 | g10502.t1 | cds | g10502.t1.CDS4 | 10258956 | 10259342 |
| chr_1 | g10502 | g10502.t1 | exon | g10502.t1.exon5 | 10259407 | 10259996 |
| chr_1 | g10502 | g10502.t1 | cds | g10502.t1.CDS5 | 10259407 | 10259996 |
| chr_1 | g10502 | g10502.t1 | exon | g10502.t1.exon6 | 10260051 | 10260196 |
| chr_1 | g10502 | g10502.t1 | cds | g10502.t1.CDS6 | 10260051 | 10260196 |
| chr_1 | g10502 | g10502.t1 | exon | g10502.t1.exon7 | 10260252 | 10260495 |
| chr_1 | g10502 | g10502.t1 | cds | g10502.t1.CDS7 | 10260252 | 10260495 |
| chr_1 | g10502 | g10502.t1 | exon | g10502.t1.exon8 | 10260727 | 10261000 |
| chr_1 | g10502 | g10502.t1 | cds | g10502.t1.CDS8 | 10260727 | 10261000 |
| chr_1 | g10502 | g10502.t1 | exon | g10502.t1.exon9 | 10261065 | 10261178 |
| chr_1 | g10502 | g10502.t1 | cds | g10502.t1.CDS9 | 10261065 | 10261178 |
| chr_1 | g10502 | g10502.t1 | TTS | g10502.t1 | 10262070 | 10262070 |
Sequences
>g10502.t1 Gene=g10502 Length=2931
ATGAGCAACAGTAATAATAGATTCAGTGTAACACCAGTCATGGATAATAAGGATTTTAAA
AATGAGCGATGTGTGGATGTTGAAAATCAAAATAATAATCACACTTCAATTGATATTGGC
AATGGAAGAAAACTTAGTTTAGCTCAATTAACTCGTGACAAATTACCACGTCTTGATCAT
TTCCGACTTTCAAAACGATTGTTCAAACGTCCAAGTGTTGGAGAACTTTATGGTGATGCA
CAGCAAAGAAGTGAGCAAGAACATGTCGAGATTGAAGGACATAATCCACATTTTCGCTTA
GGATGGATTCAAGGATGTTTGATTCCAGTCCTTTTAAATATCTATGGTGTTATGCTTTTT
CTTCGAATGGGTTGGATTGTAGCACACAGTGGTATTATTCAATCTACTATTATTATCCTC
ATTTCTGCTGTAATTTGTGTTATCACAACACTATCTTTGTCTGCTATTTGTACTAATGGC
GATGTTAAAAGTGGTGGTATCTACTATATTGTGTCAAGGTCTCTTGGTCCTGAATTTGGA
GCTTCTGTTGGAGTGGTTTTTGCATTTGCCAATGCTGTTGCTGCTTCAATGAATACTATT
GGATTTTGTGATTCATTTAATGACCTTATGGCCAGTTTTGGAGTAAAAATTATCGATGGC
GGTGTGAATGATACAAGAATTGTTGGTACAATTGCAATTTTGATCATGATAATTATTTGT
GCTGTCGGAATGGAATGGGAAGTCAAAGCACAAAATGTTTTAATTGTCATCATTGCAGCA
GCAATTATAGATTTTGTTGTTGGTACATCCATAGGACCAAAAACCGAACTACAAGTTGCT
GAAGGTTTCACAGGATTTAAAACAGAAGTTTTTGAACAAAATCTTCAACCTGATTATCGA
TTTAGTGAAGGCCTTGATCAAACTTTCTTCACTGTTTTTGCCATTTTCTTCCCTTCTGTC
ACTGGTGTACAAGCTGGTGCAAATATTTGTGGAGATCTCAAAGATCCTGCTTCTGCAATA
CCCAAAGGAACACTCCTTGCACTTTTAATTTCAATGTCAACTTATACTGGATTTGTATAT
GTTGTTGGTAGTGCAGCACTAAGAGATGCTTCAGGTTTAGTTTCTGAAGTAGAAAATCAA
ACTCTCCCATATAATTTCAGTTGTGCTACCAATCATACATGTGAATATGGAATTCATAAC
TCTTACTCTCAAATGCAATTGATGTCTCAATGGTCATGGTTAATTTATTTAGGCTGCTGG
GCAGCAACTCTTAGTACAGCTCTTACCAATCTTCTATCAGTACCACGTCTTATTCAAGCT
TTAGGTTACGATCGTATTTATCCAGGTTTACAGTTCTTTTCGAAACCATATGGGAAGAAT
GGTGAACCATATCGAGGTTATGTGCTGACATTTATTATTTCTGTTGCGTTTCTTCTTATT
GCTGATTTGAATGCAATTGCACCTTTAATCACAAATTTTTATTTGGCTGCATATGCTTTC
ATCAATTTCTGTACCTTCCATGCAGCTCTTATACAACCACTCGGATGGCGTCCAACTTTC
AAGTATTACAACAAATGGCTCAGTTTCTTTGCGTTTGTCGTGTGTGTTGTCATTATGTTC
TTACTCTCATGGCAAGCATCATTGGTCACAGTCGGTATAGTCTTTTTCCTATATTTGCTT
GTACTTTATCGAAAACCAGATGTCAATTGGGGTTCCTCATCACAAGAACAAGCTTACAAA
TCGATGATTGCCACAGCTCATCAATTACAACAAACAGGCGAACATGTAAAAAATTATCAT
CCACAGATTCTTGTACTTGCTGGAAATCCATTTTCACGCCCTCCACTTATTGATATTGCT
AATCTCATTACAAAGAACAGTTCACTTTTAATGATTGGCGATGTTAAAACAGAAAAATTA
TCACACAATGAACGAATTAAGATGGAAAAGAAAGCTTACAAATATTTTGAAGAGAAACAT
ATTAAAGCTTTTTATAATCTTATTGATGACGTTGGAATAGATGTTGGCATTAAACTTATG
ATTCAATCAAGTGGCTTTGGAAGACTCTCACCAAATATTGTACTTATGGGCTATCAAACA
AATTGGGCAACTGCTGGATTTGCTGCATTAAGATCTTACTATAATATTCTACATAACATC
TTTTCTTATCGAGTTTCTGTTGCAATTCTTCGCATGCCACATGGTCTCGATTATTCTTTC
ACTTTGAGTGATGGTGGGCATATAAATTTGGGTTATCATGAATCTATGAATGGTTTGAAT
GATGCAGTATCACTTCCTGGTTCTCCAAAGAAGAGCAAGAAACATGTGAAATCAGCAATG
CAAGAAGAAAAGGAAATGAGTTACTTTGATACAAATTACAAACAAGAGAAGGGAACAATC
GATGTATGGTGGCTGTACGATGATGGCGGTTTAACAATGCTTTTACCTTACATCATCTCA
ACACGTCCTAATTGGGCAAATTGTAAAATTCGAGTTTTCGCATTAACCAGTCGTCAACAT
GAAACAGAAATTGAAGAAAAAAATATGATTGCATTATTAAAGAAACTTCGAATAGAATTT
TCATCATTGACTATGTTGAAAGGTGTTACTGATTTACCAAAGGAAGGAACAACAAAATAT
CACGCAAAAGTATTGAATGGATTTCTTGAAGGACAAAACGACCAATGCTTTGTGACAGAC
GAAGAACGTGAACGAATGCGTGATAAAACCAATCGCCAGTTAAGATTGAGAGAAATGTTG
AAAGAACACTCGAAGAATGCCAATTTAATCGTCATGTCATTACCAATGCCACGTGTTGGA
GAGGTCTCAGCACCACTTTACATGTCATGGCTAGAAACACTATCAGCAGGTATGCCACCT
ATGCTGTTCGTCCGTGGCAATCAAACCAATGTTCTCACCTTCTATTCATGA
>g10502.t1 Gene=g10502 Length=976
MSNSNNRFSVTPVMDNKDFKNERCVDVENQNNNHTSIDIGNGRKLSLAQLTRDKLPRLDH
FRLSKRLFKRPSVGELYGDAQQRSEQEHVEIEGHNPHFRLGWIQGCLIPVLLNIYGVMLF
LRMGWIVAHSGIIQSTIIILISAVICVITTLSLSAICTNGDVKSGGIYYIVSRSLGPEFG
ASVGVVFAFANAVAASMNTIGFCDSFNDLMASFGVKIIDGGVNDTRIVGTIAILIMIIIC
AVGMEWEVKAQNVLIVIIAAAIIDFVVGTSIGPKTELQVAEGFTGFKTEVFEQNLQPDYR
FSEGLDQTFFTVFAIFFPSVTGVQAGANICGDLKDPASAIPKGTLLALLISMSTYTGFVY
VVGSAALRDASGLVSEVENQTLPYNFSCATNHTCEYGIHNSYSQMQLMSQWSWLIYLGCW
AATLSTALTNLLSVPRLIQALGYDRIYPGLQFFSKPYGKNGEPYRGYVLTFIISVAFLLI
ADLNAIAPLITNFYLAAYAFINFCTFHAALIQPLGWRPTFKYYNKWLSFFAFVVCVVIMF
LLSWQASLVTVGIVFFLYLLVLYRKPDVNWGSSSQEQAYKSMIATAHQLQQTGEHVKNYH
PQILVLAGNPFSRPPLIDIANLITKNSSLLMIGDVKTEKLSHNERIKMEKKAYKYFEEKH
IKAFYNLIDDVGIDVGIKLMIQSSGFGRLSPNIVLMGYQTNWATAGFAALRSYYNILHNI
FSYRVSVAILRMPHGLDYSFTLSDGGHINLGYHESMNGLNDAVSLPGSPKKSKKHVKSAM
QEEKEMSYFDTNYKQEKGTIDVWWLYDDGGLTMLLPYIISTRPNWANCKIRVFALTSRQH
ETEIEEKNMIALLKKLRIEFSSLTMLKGVTDLPKEGTTKYHAKVLNGFLEGQNDQCFVTD
EERERMRDKTNRQLRLREMLKEHSKNANLIVMSLPMPRVGEVSAPLYMSWLETLSAGMPP
MLFVRGNQTNVLTFYS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g10502.t1 | Gene3D | G3DSA:1.20.1740.10 | - | 99 | 585 | 7.8E-30 |
| 5 | g10502.t1 | PANTHER | PTHR11827:SF48 | GH09711P | 17 | 753 | 0.0 |
| 7 | g10502.t1 | PANTHER | PTHR11827 | SOLUTE CARRIER FAMILY 12, CATION COTRANSPORTERS | 17 | 753 | 0.0 |
| 4 | g10502.t1 | PANTHER | PTHR11827:SF48 | GH09711P | 772 | 975 | 0.0 |
| 6 | g10502.t1 | PANTHER | PTHR11827 | SOLUTE CARRIER FAMILY 12, CATION COTRANSPORTERS | 772 | 975 | 0.0 |
| 1 | g10502.t1 | Pfam | PF00324 | Amino acid permease | 107 | 604 | 1.1E-100 |
| 3 | g10502.t1 | Pfam | PF03522 | Solute carrier family 12 | 613 | 782 | 2.2E-43 |
| 2 | g10502.t1 | Pfam | PF03522 | Solute carrier family 12 | 780 | 976 | 6.7E-88 |
| 24 | g10502.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 105 | - |
| 40 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 106 | 126 | - |
| 31 | g10502.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 127 | 131 | - |
| 43 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 132 | 158 | - |
| 22 | g10502.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 159 | 178 | - |
| 39 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 179 | 200 | - |
| 30 | g10502.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 201 | 226 | - |
| 41 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 227 | 246 | - |
| 27 | g10502.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 247 | 252 | - |
| 36 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 253 | 271 | - |
| 29 | g10502.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 272 | 308 | - |
| 44 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 309 | 331 | - |
| 25 | g10502.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 332 | 342 | - |
| 42 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 343 | 363 | - |
| 33 | g10502.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 364 | 412 | - |
| 38 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 413 | 432 | - |
| 21 | g10502.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 433 | 466 | - |
| 37 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 467 | 487 | - |
| 32 | g10502.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 488 | 492 | - |
| 45 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 493 | 511 | - |
| 23 | g10502.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 512 | 522 | - |
| 35 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 523 | 540 | - |
| 28 | g10502.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 541 | 545 | - |
| 34 | g10502.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 546 | 563 | - |
| 26 | g10502.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 564 | 976 | - |
| 20 | g10502.t1 | TIGRFAM | TIGR00930 | 2a30: K-Cl cotransporter | 80 | 976 | 0.0 |
| 16 | g10502.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 107 | 126 | - |
| 10 | g10502.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 136 | 158 | - |
| 14 | g10502.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 179 | 201 | - |
| 11 | g10502.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 227 | 246 | - |
| 15 | g10502.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 253 | 272 | - |
| 13 | g10502.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 309 | 331 | - |
| 12 | g10502.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 344 | 366 | - |
| 17 | g10502.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 412 | 434 | - |
| 18 | g10502.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 467 | 489 | - |
| 8 | g10502.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 494 | 516 | - |
| 9 | g10502.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 529 | 562 | - |
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 K14426 (solute carrier family 12 (sodium/chloride transporter), member 3)
Pathway
This gene does not belong to any 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