General information for g10503.t4
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 g10503 is located on chr_1: 10267173..10269166 (+ 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 | g10503 | g10503.t4 | isoform | g10503.t4 | 10263705 | 10267173 |
| chr_1 | g10503 | g10503.t4 | exon | g10503.t4.exon1 | 10263705 | 10264041 |
| chr_1 | g10503 | g10503.t4 | cds | g10503.t4.CDS1 | 10263727 | 10264041 |
| chr_1 | g10503 | g10503.t4 | exon | g10503.t4.exon2 | 10264099 | 10264485 |
| chr_1 | g10503 | g10503.t4 | cds | g10503.t4.CDS2 | 10264099 | 10264485 |
| chr_1 | g10503 | g10503.t4 | exon | g10503.t4.exon3 | 10264556 | 10265145 |
| chr_1 | g10503 | g10503.t4 | cds | g10503.t4.CDS3 | 10264556 | 10265145 |
| chr_1 | g10503 | g10503.t4 | exon | g10503.t4.exon4 | 10265933 | 10266168 |
| chr_1 | g10503 | g10503.t4 | cds | g10503.t4.CDS4 | 10265933 | 10266168 |
| chr_1 | g10503 | g10503.t4 | exon | g10503.t4.exon5 | 10266379 | 10266664 |
| chr_1 | g10503 | g10503.t4 | cds | g10503.t4.CDS5 | 10266379 | 10266664 |
| chr_1 | g10503 | g10503.t4 | exon | g10503.t4.exon6 | 10266722 | 10267173 |
| chr_1 | g10503 | g10503.t4 | cds | g10503.t4.CDS6 | 10266722 | 10267010 |
| chr_1 | g10503 | g10503.t4 | TTS | g10503.t4 | 10267294 | 10267294 |
| chr_1 | g10503 | g10503.t4 | TSS | g10503.t4 | NA | NA |
Sequences
>g10503.t4 Gene=g10503 Length=2288
AAAAGGGTTCACTGGTTTCTCAATGGAAGTTTTTAAGAAAAATTTAAAGCCTGATTATCG
ATTTAGTGAAGGTCTTGATCAAACTTTCTTGACAGTTTTTGCTATTTATTTTCCATCTGT
TACTGGCATCCAAGCTGGTGCAAATATCTGTGGTGATCTCAAAGATCCTGCTTCTGCAAT
ACCCAAAGGAACACTCCTTGCACTTTTGATATCTACAATTTCTTATGTATGCTTCGCTTT
ATTTGCTGGTGGTACTGCATTAAGAGACGGCTCAGGTTTAGTTATGGATGTTGTAAATAA
AACTTATCCTTATAATTTTGATTGTGTTGCAAATCACACATGTCAATATGGACTACAAAA
TAGTTATTCAGTTATGCAACTGATGTCTGTGTGGGGAGGTCTAATTTATGCAGGCTGCTG
GGCAGCAACTCTTAGTACAGCTCTTACTAATCTTTTGTCTGTTCCACGATTAGTTCAAGC
TCTAGGCGTTGATCGCATTTATCCAGGTGTAATTTTCTTTTCGAAACCATACGGAAAAAC
GGGTGAACCTTATCGAGGCTATGTCCTTGTCTTTTTTGTATCGGCAACCTTCCTATTAAT
CGCTGAATTGAATCTCATTGCACCACTTATTTCAAATTTTTATCTTGCTGCTTATGCACT
TATCAACTTCTGTACATTCCATGCTGCTTTTGTTCAGCCTCTAGGATGGCGTCCAACATT
TAGATATTACAATGCTTGGCTCAGTCTTTTCGGCTGTATCTTGTGTGTCGTTATAATGTT
CTTATTATCATGGGTGTCTTCTTTGATTACAATAACAATCATCTTTGCTCTTTATTTGAT
TGTAATGTATCGAAAACCTGATGTTAATTGGGGAAGCAGTACACAAGAACAAACTTATAA
AACAGCTTTATCAGCAGCATTACGTTTACAGCGTGTCAATGATCACATTAAAAATTATCA
TCCACAAATTCTTGTTTTATGTGGCAGTCCTCATACTCGACCTCCTTTAATTGATTTAGC
GCATTCCATTACAAAGCATCATTCATTACTTATTGTTGGTGATATTGTTAACGGAAAGTT
ATCACATAGACGACGAAAAGAAAAATATGAAGATGCACAGAAGTGGTTGGAAGCAAGAAA
GATCAAAGCATTTTACAATCTTATTGATAATGTTGTCTTTGAAGATGGTGTGAGATCTTT
AATTCAAGCTAGCGGTTTTGGCAAATTTCAACCAAATATTGTAATGATGGGATATAAAGC
TGATTGGAGGACATGCAACACAAGACAATTGGAAACATATTTCAACAGTTTACATACTGC
ATTTGAATGTCGAATGGCTGTTGCAATTTTGAGCCTTCCGTCTGGGATAGATTTCTCTCA
ATATGTTCCAGAATATAAAGAACAAACTCCTGCAGTTCATTTTGCATCCGAAATTACTAG
CTCAAGAGATGAATTTGCTTCAAAGACATTGAAAATGATGCATATTGATTCAAATTTGAA
TTTAGAGGGTATGGTTTCAAGCACAACATCGATCACTACACCTCAAAGTGCTCCTTTACC
GAATCTTCAAAAATTACAAAGTCAAATATCAACAAACGAAATAAATTATGCAACACAAGG
AGGATCGAAAGTTCCTAAAGATGTGCTCGATGCAATGAATGTTTTCAATGTCAAACAAGA
GAAGGGAACAATCGATGTATGGTGGCTTTACGATGATGGCGGTTTAACAATGCTTTTACC
TTACATCATCTCAACACGTTCTAATTGGGCAAATTGTAAAATTCGAGTTTTTGCACTCTC
AAGTAGACAGCATGAATTAGAAGTTGAAGAAAGAAATATGGCAAATTTACTTTCAAAATT
ACGTATTGACTATTCATCTCTTATAATGTTGCAAGGAATAACTGAAAAACCTAAAGATGA
GACAATTAAAATGCATCTTAGAATGCTCGATGGCTTCTTAGAGAAAGAAAATCAGCATAA
TGAAGGATCAGTTTCTATGACAGAATTTAAGCAACTTGAAGACAAAACAAATCGTCATTT
AAAATTGAGAGAAATGCTAAAAGAACACTCGAAGAATGCTAATCTAATTGTCATGTCTTT
ACCTATGCCAAGACAAGTAATATAAAAGTTATTTTATATAAATATAAAATATTTTTAATT
TTTTTATGTTATAGGGTTCTGTCTCAGCACCTCTTTATATGTCTTGGCTCGACATTCTCA
CAACAGATATGCCACCCATTTTACTTGTCAGAGGAAATCAAAGTTCTGTATTAACTTTCT
ATTCATAA
>g10503.t4 Gene=g10503 Length=700
MEVFKKNLKPDYRFSEGLDQTFLTVFAIYFPSVTGIQAGANICGDLKDPASAIPKGTLLA
LLISTISYVCFALFAGGTALRDGSGLVMDVVNKTYPYNFDCVANHTCQYGLQNSYSVMQL
MSVWGGLIYAGCWAATLSTALTNLLSVPRLVQALGVDRIYPGVIFFSKPYGKTGEPYRGY
VLVFFVSATFLLIAELNLIAPLISNFYLAAYALINFCTFHAAFVQPLGWRPTFRYYNAWL
SLFGCILCVVIMFLLSWVSSLITITIIFALYLIVMYRKPDVNWGSSTQEQTYKTALSAAL
RLQRVNDHIKNYHPQILVLCGSPHTRPPLIDLAHSITKHHSLLIVGDIVNGKLSHRRRKE
KYEDAQKWLEARKIKAFYNLIDNVVFEDGVRSLIQASGFGKFQPNIVMMGYKADWRTCNT
RQLETYFNSLHTAFECRMAVAILSLPSGIDFSQYVPEYKEQTPAVHFASEITSSRDEFAS
KTLKMMHIDSNLNLEGMVSSTTSITTPQSAPLPNLQKLQSQISTNEINYATQGGSKVPKD
VLDAMNVFNVKQEKGTIDVWWLYDDGGLTMLLPYIISTRSNWANCKIRVFALSSRQHELE
VEERNMANLLSKLRIDYSSLIMLQGITEKPKDETIKMHLRMLDGFLEKENQHNEGSVSMT
EFKQLEDKTNRHLKLREMLKEHSKNANLIVMSLPMPRQVI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g10503.t4 | Coils | Coil | Coil | 665 | 685 | - |
| 11 | g10503.t4 | Gene3D | G3DSA:1.20.1740.10 | - | 1 | 297 | 7.4E-18 |
| 3 | g10503.t4 | PANTHER | PTHR11827:SF48 | GH09711P | 2 | 698 | 0.0 |
| 4 | g10503.t4 | PANTHER | PTHR11827 | SOLUTE CARRIER FAMILY 12, CATION COTRANSPORTERS | 2 | 698 | 0.0 |
| 1 | g10503.t4 | Pfam | PF00324 | Amino acid permease | 3 | 317 | 1.8E-69 |
| 2 | g10503.t4 | Pfam | PF03522 | Solute carrier family 12 | 326 | 698 | 2.0E-126 |
| 19 | g10503.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 19 | - |
| 25 | g10503.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 44 | - |
| 14 | g10503.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 45 | 55 | - |
| 27 | g10503.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 56 | 80 | - |
| 17 | g10503.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 81 | 122 | - |
| 26 | g10503.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 123 | 145 | - |
| 16 | g10503.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 146 | 179 | - |
| 23 | g10503.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 180 | 200 | - |
| 20 | g10503.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 201 | 205 | - |
| 22 | g10503.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 206 | 224 | - |
| 15 | g10503.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 225 | 235 | - |
| 24 | g10503.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 236 | 254 | - |
| 18 | g10503.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 255 | 259 | - |
| 21 | g10503.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 260 | 276 | - |
| 13 | g10503.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 277 | 700 | - |
| 9 | g10503.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 22 | 44 | - |
| 10 | g10503.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 57 | 79 | - |
| 6 | g10503.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 123 | 145 | - |
| 5 | g10503.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 181 | 203 | - |
| 8 | g10503.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 207 | 229 | - |
| 7 | g10503.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 242 | 273 | - |
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:0006811 | ion transport | BP |
| GO:0022857 | transmembrane transporter activity | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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