General information for g12037.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Sodium-coupled monocarboxylate transporter 2.
Parent gene
- The parent gene g12037 is located on chr_1: 20583721..20584878 (+ 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 | g12037 | g12037.t1 | TSS | g12037.t1 | 20582347 | 20582347 |
| chr_1 | g12037 | g12037.t1 | isoform | g12037.t1 | 20582404 | 20584878 |
| chr_1 | g12037 | g12037.t1 | exon | g12037.t1.exon1 | 20582404 | 20582539 |
| chr_1 | g12037 | g12037.t1 | cds | g12037.t1.CDS1 | 20582404 | 20582539 |
| chr_1 | g12037 | g12037.t1 | exon | g12037.t1.exon2 | 20582608 | 20582757 |
| chr_1 | g12037 | g12037.t1 | cds | g12037.t1.CDS2 | 20582608 | 20582757 |
| chr_1 | g12037 | g12037.t1 | exon | g12037.t1.exon3 | 20582827 | 20582960 |
| chr_1 | g12037 | g12037.t1 | cds | g12037.t1.CDS3 | 20582827 | 20582960 |
| chr_1 | g12037 | g12037.t1 | exon | g12037.t1.exon4 | 20583062 | 20583145 |
| chr_1 | g12037 | g12037.t1 | cds | g12037.t1.CDS4 | 20583062 | 20583145 |
| chr_1 | g12037 | g12037.t1 | exon | g12037.t1.exon5 | 20583204 | 20583236 |
| chr_1 | g12037 | g12037.t1 | cds | g12037.t1.CDS5 | 20583204 | 20583236 |
| chr_1 | g12037 | g12037.t1 | exon | g12037.t1.exon6 | 20583304 | 20583373 |
| chr_1 | g12037 | g12037.t1 | cds | g12037.t1.CDS6 | 20583304 | 20583373 |
| chr_1 | g12037 | g12037.t1 | exon | g12037.t1.exon7 | 20583447 | 20583468 |
| chr_1 | g12037 | g12037.t1 | cds | g12037.t1.CDS7 | 20583447 | 20583468 |
| chr_1 | g12037 | g12037.t1 | exon | g12037.t1.exon8 | 20583532 | 20583663 |
| chr_1 | g12037 | g12037.t1 | cds | g12037.t1.CDS8 | 20583532 | 20583663 |
| chr_1 | g12037 | g12037.t1 | exon | g12037.t1.exon9 | 20583721 | 20584322 |
| chr_1 | g12037 | g12037.t1 | cds | g12037.t1.CDS9 | 20583721 | 20584322 |
| chr_1 | g12037 | g12037.t1 | exon | g12037.t1.exon10 | 20584382 | 20584878 |
| chr_1 | g12037 | g12037.t1 | cds | g12037.t1.CDS10 | 20584382 | 20584878 |
| chr_1 | g12037 | g12037.t1 | TTS | g12037.t1 | 20584990 | 20584990 |
Sequences
>g12037.t1 Gene=g12037 Length=1860
ATGACAGAAAACATAACGACGACACCAAAAATATCCATCCAAGACCTAAGTGTCTCAATT
CAAAGATTTGGCGTTGTTGACTATATGATTTTTCTAGGCATGCTAATTTTCTGCACTTTC
ATTGGAATGTATTTTGGTTGGCAAGATCATAAAAGGCGGAAACGATTAATTAGACAAGAT
TCAGCAACACAAGCTGCAGATTATTTGATGGGTGGTCGTGATATGCCAGTCATTCCAATT
GCATTGTCGCTAACTGCATCATTAGTATCAGGAAATATGTTGCTAGGAACTGCCACTGAA
ATGTATCTTTATGGATCGCAGTACATCTTTGCAGTAATTTCACTTGCTCTCTGTGGCCTA
GCCATGCACTATATTATAATTCCAGTATTTCATGGCCTTCAAATAACATCAACATACGAG
TATCTAGAGAGACGTTTTGATAAAAGATTACGAATGTTTGGGTCATTGATGTTTATGATA
GGTGTAAACCTCTTTTTGCCTATCGTCATTTATGTTCCCGCTTTGGCATTTAATCAAACA
ACAGGCATTAATGTTCACATTATTACACCTTTGTGCTTGATAATTTGTGTATTTTACACA
TGTTTAGGTGGAATGAAAGGCGTTGTTTGGACTGATGTTGTGCAAGTTATTATTTTGTAT
GTTACACTTTTTGTCATTGCAATTAAGGGAACAATTCAAGTTGGTGGTTTATCAGTGCTT
CTTGAAAGAAATAGAGAAAGTGGAAGATTACAAGGCCCAGATTTACGATTAGATCCTACA
ATTAGACATTCATTTTGGACAATTGTGATTGGTTTTACATTCCTTCAAATCTCAGCTAAT
GGTTTAAATCAGAATATGATTCAAAGATTTATGGCTCTAAGCACTGTAAGAAAAGCAAGA
ATAGGGAATGTAATCAACATCATAGGCATCATCATCATGATTTCAGTGTCATGTTATAAT
GGTCTCTTAACATATGCAATTTATTACAATTGTGATCCTCTAACAACAGGACTTGCTAAA
GCTAAAGATCAATTACTACCACTCATGGTTATGGAAAACTTTACTGATATTCCTGGTTTA
GCTGGTTTCTTTGTGGCTGGTGTTTTTGCTGCCGCTCTTAGCACATTGTCAACTGCTTAC
AATTCAATGGCTGCTGTCGTTTTTGAAGATTTCTTCAAAAGAAATTCAAAGAAAGGAGTT
TCTGATGCTATGACATTTATAATTATGCGTGGCACTGTTTTGGCATTTGGAACTGTTAGT
GTTTTGCTTGTATATATTGTGCAACATATGGGTCAATTGCTACAGCTCACATTCTCAATT
CCTGCTACTTCACTTGGTCCAATGCTTGGTGTGTTTATAATTGGATTGATGATTCCATGG
ATAGGAAAAAGAGCAACATTTTATAGTGTGATTATCGTTTACTTTTCAATGCTCGCTTTT
GTATTGAAAGCACAATTTCAAGTTGCTCAAGGAACGATAAAATTTGATGAACGTCCAACA
TCGACTGAAGGATGTCTCTATAATTTTACTAGTGATTTTACTACAACGACAATTTCTTCA
ATTTCTTCAACAACATTAATTCCTGAAGTAGAAATAGCACCAACACCAAGACGAACAATT
TCCTATCTCTATTTCACTCTTCTTGGTGGTATTTTTGTCATTCTTTTCTCAGTATTATTG
AGCATATGTTTTGGATTTGAAAATCCTAAAAAAGTTGATCCACAATGTCTTGCACCATTT
ATGAGAAAGTTTATTAAATCTGAAATTGAACCAGTGTGTGAAAAAGATGAAAATGATAAT
GAAGATCGTGGGCTTGAAATGAATTTTTGGAAAAATTCAAAGTCTGATGTAAAAATGTAA
>g12037.t1 Gene=g12037 Length=619
MTENITTTPKISIQDLSVSIQRFGVVDYMIFLGMLIFCTFIGMYFGWQDHKRRKRLIRQD
SATQAADYLMGGRDMPVIPIALSLTASLVSGNMLLGTATEMYLYGSQYIFAVISLALCGL
AMHYIIIPVFHGLQITSTYEYLERRFDKRLRMFGSLMFMIGVNLFLPIVIYVPALAFNQT
TGINVHIITPLCLIICVFYTCLGGMKGVVWTDVVQVIILYVTLFVIAIKGTIQVGGLSVL
LERNRESGRLQGPDLRLDPTIRHSFWTIVIGFTFLQISANGLNQNMIQRFMALSTVRKAR
IGNVINIIGIIIMISVSCYNGLLTYAIYYNCDPLTTGLAKAKDQLLPLMVMENFTDIPGL
AGFFVAGVFAAALSTLSTAYNSMAAVVFEDFFKRNSKKGVSDAMTFIIMRGTVLAFGTVS
VLLVYIVQHMGQLLQLTFSIPATSLGPMLGVFIIGLMIPWIGKRATFYSVIIVYFSMLAF
VLKAQFQVAQGTIKFDERPTSTEGCLYNFTSDFTTTTISSISSTTLIPEVEIAPTPRRTI
SYLYFTLLGGIFVILFSVLLSICFGFENPKKVDPQCLAPFMRKFIKSEIEPVCEKDENDN
EDRGLEMNFWKNSKSDVKM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 32 | g12037.t1 | CDD | cd11492 | SLC5sbd_NIS-SMVT | 26 | 562 | 0.0 |
| 4 | g12037.t1 | Gene3D | G3DSA:1.20.1730.10 | - | 57 | 569 | 1.1E-105 |
| 2 | g12037.t1 | PANTHER | PTHR42985 | SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER | 17 | 597 | 1.4E-212 |
| 3 | g12037.t1 | PANTHER | PTHR42985:SF5 | LP24461P | 17 | 597 | 1.4E-212 |
| 1 | g12037.t1 | Pfam | PF00474 | Sodium:solute symporter family | 68 | 472 | 1.3E-37 |
| 14 | g12037.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 27 | - |
| 28 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 28 | 47 | - |
| 5 | g12037.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 48 | 76 | - |
| 26 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 77 | 96 | - |
| 18 | g12037.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 97 | 107 | - |
| 29 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 108 | 133 | - |
| 8 | g12037.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 134 | 152 | - |
| 24 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 153 | 177 | - |
| 16 | g12037.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 178 | 182 | - |
| 20 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 183 | 205 | - |
| 9 | g12037.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 206 | 216 | - |
| 22 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 217 | 241 | - |
| 17 | g12037.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 242 | 260 | - |
| 31 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 261 | 283 | - |
| 11 | g12037.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 284 | 303 | - |
| 27 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 304 | 328 | - |
| 12 | g12037.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 329 | 356 | - |
| 21 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 357 | 382 | - |
| 7 | g12037.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 383 | 402 | - |
| 25 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 403 | 427 | - |
| 15 | g12037.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 428 | 432 | - |
| 19 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 433 | 458 | - |
| 6 | g12037.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 459 | 464 | - |
| 23 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 465 | 486 | - |
| 13 | g12037.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 487 | 541 | - |
| 30 | g12037.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 542 | 566 | - |
| 10 | g12037.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 567 | 619 | - |
| 46 | g12037.t1 | ProSiteProfiles | PS50283 | Sodium:solute symporter family profile. | 24 | 487 | 49.26 |
| 47 | g12037.t1 | TIGRFAM | TIGR00813 | sss: transporter, solute:sodium symporter (SSS) family | 68 | 472 | 4.6E-78 |
| 41 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 25 | 47 | - |
| 34 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 76 | 98 | - |
| 37 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 108 | 130 | - |
| 39 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 150 | 172 | - |
| 42 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 187 | 209 | - |
| 45 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 216 | 238 | - |
| 36 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 264 | 283 | - |
| 40 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 304 | 326 | - |
| 35 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 363 | 385 | - |
| 38 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 406 | 428 | - |
| 33 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 438 | 460 | - |
| 44 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 467 | 489 | - |
| 43 | g12037.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 544 | 566 | - |
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:0022857 | transmembrane transporter activity | MF |
KEGG
Orthology
- This transcript has been annotated with K03307 (solute:Na+ symporter, SSS family)
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