General information for g16374.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Sodium-coupled monocarboxylate transporter 1.
Parent gene
- The parent gene g16374 is located on chr_4: 9258890..9261967 (+ 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_4 | g16374 | g16374.t1 | isoform | g16374.t1 | 9258890 | 9261967 |
| chr_4 | g16374 | g16374.t1 | exon | g16374.t1.exon1 | 9258890 | 9259160 |
| chr_4 | g16374 | g16374.t1 | cds | g16374.t1.CDS1 | 9258890 | 9259160 |
| chr_4 | g16374 | g16374.t1 | exon | g16374.t1.exon2 | 9259262 | 9259395 |
| chr_4 | g16374 | g16374.t1 | cds | g16374.t1.CDS2 | 9259262 | 9259395 |
| chr_4 | g16374 | g16374.t1 | exon | g16374.t1.exon3 | 9259509 | 9259592 |
| chr_4 | g16374 | g16374.t1 | cds | g16374.t1.CDS3 | 9259509 | 9259592 |
| chr_4 | g16374 | g16374.t1 | exon | g16374.t1.exon4 | 9259666 | 9259798 |
| chr_4 | g16374 | g16374.t1 | cds | g16374.t1.CDS4 | 9259666 | 9259798 |
| chr_4 | g16374 | g16374.t1 | exon | g16374.t1.exon5 | 9260157 | 9260280 |
| chr_4 | g16374 | g16374.t1 | cds | g16374.t1.CDS5 | 9260157 | 9260280 |
| chr_4 | g16374 | g16374.t1 | exon | g16374.t1.exon6 | 9260400 | 9261146 |
| chr_4 | g16374 | g16374.t1 | cds | g16374.t1.CDS6 | 9260400 | 9261146 |
| chr_4 | g16374 | g16374.t1 | exon | g16374.t1.exon7 | 9261646 | 9261967 |
| chr_4 | g16374 | g16374.t1 | cds | g16374.t1.CDS7 | 9261646 | 9261967 |
| chr_4 | g16374 | g16374.t1 | TSS | g16374.t1 | NA | NA |
| chr_4 | g16374 | g16374.t1 | TTS | g16374.t1 | NA | NA |
Sequences
>g16374.t1 Gene=g16374 Length=1815
ATGTCAAGTTCAACACTCGATGTTGACACATTGAGCAAATCAATGCAACAGATGGGAACA
ACTGATTATGCAGTTTTCATTTTAATGCTTGTTTTTTCATCACTTGTCGGTCTTTATTTT
GGCTATCAAGATCATAAAATGAAGAAACAAAATAAAAGAAATGGAATTGAAGATGATGCT
ACAAATTATTTAGTTGGTGGAAGAAATATGCAAGTTTTGCCTGTTTCACTTTCAATGATT
GCCTCTTTTGTGTCAGGAGTAACTATATTAGGAACATGTACAGAAGTTTATCTTTATGGT
TCACAATATTCGCTTTTTTTGATTGCAATATTCTTTGGTACAATAATTTCTCACTTTACA
ATTATTCCTGTTATTCACCATTGTAAAATAAATTCATTTTATGAATATTTAGAAATTCGT
TTCAATCGTGAGCTTCGAATTTTTGGTTCATGTGGATTTGTGATTTCATTCACTTTATTT
ACTCCTATTGTAATTTATATGCCTGCATTAGCGTTCAACCAAATGACAGGAATCAATGTA
CATATTATTACTTCTGTTTCAATTTTTATTTGTGTCATATACACATCATTGGGTGGAATA
AAAGCTGTTGTTTGGACTGATGTTTTGCAGATCATCATAACATTTTTGACTATAGCTTTG
ATAGCAATTAAAGGAACAATGATAGTTGGTGGACTTGATATTGTTTTAGACAGAAATCTT
AAAGGAGAACGAATTGAACCAATTGACTTCAATTTTGATCCAACAATTCGTCATTCATTT
TGGACTTTAGTAATTGGTGGTTCAATTTGGTGGCTAAGTATAAATGGAATCAATCAAGCA
ATGGTTCAACGTTATTTAAGTTTAAAAACTATGAAAAAAGCTCAAACTGCCAATATTTTA
TTTTCTTTTGGTGCAATTATATTTATTATTCTTTCTTTATACAATGGATTTCTTCTTTAT
GCAACTTATCACGATTGTGATCCTTTAACAACAAAATTAGCCCAACATCCAGATCAAATG
TTTTCATTACTTGCAATTGAAACATTAAAAGATTTTCCTGGTTTAGTTGGAATTTTTGTT
GCTGGTATTTTTAGTGCTGCTCTTTCATCAGCCTCAACTGGAATGAATTCAATTTCTGCT
GTGATTCTTTTAGATTTTTGTGGCAAAATGAAACTTTCAAAACTTCAAACTTCATTGATT
CTTCGTGGTTCTGTTATAATTTTTGGAATTATTTCAGTTCTGTTGGTTTTTGTTATTGAA
AAACTTGGAGCAATTTTACAATTTGCAATGATTATTCCTAGTTCCACGAGTGGGCCATTG
CTTGGAATTTTCTTAATTGGAATTTTCACACCTTGGATTGGAGGAAAATCAGCTTTTTGG
TCGATAATTATTTCATCAGTAATAATGACTGCTATTATTGTAAAAGCACAAATTGAATCA
TTGAGTGGAAAAATCAAAATTCCTTTGAAACCAGTCTCAATTGATGGTTGCCATTACAAC
TTCACTTTTTCATCATCACCAATGGCAACAGCTGAAGCAATTGAAGAAGAAAGCAAGCAA
ATTTATCACATGTCATATCTTTATTATACAGTTTTTGGTGCACTTTTAGTCATCATCATT
TCAGTTCTTTTAAGTTTCATTTTTGGTTTTCAAGATGCAAGAAAAATTGATAAAAGACTT
GTTGCACCTTTCATGAGAAAATTCATTCAATTTGAAAATCAAGAAATGAAAACTAAAAAT
TTAAAAATTGAGGAAGAAAGTTTGATGGAAATTTACAAATTGAAAAATATAGAAGAAAAA
GAAACCTGTCGATAA
>g16374.t1 Gene=g16374 Length=604
MSSSTLDVDTLSKSMQQMGTTDYAVFILMLVFSSLVGLYFGYQDHKMKKQNKRNGIEDDA
TNYLVGGRNMQVLPVSLSMIASFVSGVTILGTCTEVYLYGSQYSLFLIAIFFGTIISHFT
IIPVIHHCKINSFYEYLEIRFNRELRIFGSCGFVISFTLFTPIVIYMPALAFNQMTGINV
HIITSVSIFICVIYTSLGGIKAVVWTDVLQIIITFLTIALIAIKGTMIVGGLDIVLDRNL
KGERIEPIDFNFDPTIRHSFWTLVIGGSIWWLSINGINQAMVQRYLSLKTMKKAQTANIL
FSFGAIIFIILSLYNGFLLYATYHDCDPLTTKLAQHPDQMFSLLAIETLKDFPGLVGIFV
AGIFSAALSSASTGMNSISAVILLDFCGKMKLSKLQTSLILRGSVIIFGIISVLLVFVIE
KLGAILQFAMIIPSSTSGPLLGIFLIGIFTPWIGGKSAFWSIIISSVIMTAIIVKAQIES
LSGKIKIPLKPVSIDGCHYNFTFSSSPMATAEAIEEESKQIYHMSYLYYTVFGALLVIII
SVLLSFIFGFQDARKIDKRLVAPFMRKFIQFENQEMKTKNLKIEEESLMEIYKLKNIEEK
ETCR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 32 | g16374.t1 | CDD | cd11492 | SLC5sbd_NIS-SMVT | 21 | 547 | 0.0 |
| 4 | g16374.t1 | Gene3D | G3DSA:1.20.1730.10 | - | 52 | 558 | 5.2E-106 |
| 2 | g16374.t1 | PANTHER | PTHR42985 | SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER | 14 | 581 | 3.7E-206 |
| 3 | g16374.t1 | PANTHER | PTHR42985:SF5 | LP24461P | 14 | 581 | 3.7E-206 |
| 1 | g16374.t1 | Pfam | PF00474 | Sodium:solute symporter family | 63 | 464 | 5.8E-31 |
| 18 | g16374.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 22 | - |
| 20 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 23 | 42 | - |
| 9 | g16374.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 43 | 76 | - |
| 26 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 77 | 99 | - |
| 17 | g16374.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 100 | 104 | - |
| 28 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 105 | 126 | - |
| 11 | g16374.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 127 | 146 | - |
| 29 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 147 | 172 | - |
| 13 | g16374.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 173 | 177 | - |
| 23 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 178 | 197 | - |
| 6 | g16374.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 198 | 208 | - |
| 19 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 209 | 232 | - |
| 12 | g16374.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 233 | 259 | - |
| 22 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 260 | 278 | - |
| 7 | g16374.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 279 | 298 | - |
| 21 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 299 | 323 | - |
| 16 | g16374.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 324 | 357 | - |
| 31 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 358 | 387 | - |
| 8 | g16374.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 388 | 398 | - |
| 24 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 399 | 419 | - |
| 15 | g16374.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 420 | 424 | - |
| 25 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 425 | 446 | - |
| 10 | g16374.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 447 | 457 | - |
| 27 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 458 | 478 | - |
| 14 | g16374.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 479 | 525 | - |
| 30 | g16374.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 526 | 550 | - |
| 5 | g16374.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 551 | 604 | - |
| 46 | g16374.t1 | ProSiteProfiles | PS50283 | Sodium:solute symporter family profile. | 19 | 479 | 46.415 |
| 47 | g16374.t1 | TIGRFAM | TIGR00813 | sss: transporter, solute:sodium symporter (SSS) family | 63 | 465 | 7.5E-75 |
| 37 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 42 | - |
| 40 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 77 | 99 | - |
| 38 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 103 | 125 | - |
| 34 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 145 | 167 | - |
| 43 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 182 | 204 | - |
| 44 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 211 | 230 | - |
| 36 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 259 | 278 | - |
| 33 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 299 | 321 | - |
| 42 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 356 | 378 | - |
| 35 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 399 | 418 | - |
| 39 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 428 | 450 | - |
| 41 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 457 | 474 | - |
| 45 | g16374.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 528 | 550 | - |
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 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