General information for g16376.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Sodium-coupled monocarboxylate transporter 1.
Parent gene
- The parent gene g16376 is located on chr_4: 9272238..9273825 (+ 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 | g16376 | g16376.t1 | isoform | g16376.t1 | 9272238 | 9273825 |
| chr_4 | g16376 | g16376.t1 | exon | g16376.t1.exon1 | 9272238 | 9272508 |
| chr_4 | g16376 | g16376.t1 | cds | g16376.t1.CDS1 | 9272238 | 9272508 |
| chr_4 | g16376 | g16376.t1 | exon | g16376.t1.exon2 | 9272611 | 9272745 |
| chr_4 | g16376 | g16376.t1 | cds | g16376.t1.CDS2 | 9272611 | 9272745 |
| chr_4 | g16376 | g16376.t1 | exon | g16376.t1.exon3 | 9273017 | 9273148 |
| chr_4 | g16376 | g16376.t1 | cds | g16376.t1.CDS3 | 9273017 | 9273148 |
| chr_4 | g16376 | g16376.t1 | exon | g16376.t1.exon4 | 9273611 | 9273632 |
| chr_4 | g16376 | g16376.t1 | cds | g16376.t1.CDS4 | 9273611 | 9273632 |
| chr_4 | g16376 | g16376.t1 | exon | g16376.t1.exon5 | 9273756 | 9273825 |
| chr_4 | g16376 | g16376.t1 | cds | g16376.t1.CDS5 | 9273756 | 9273825 |
| chr_4 | g16376 | g16376.t1 | TSS | g16376.t1 | NA | NA |
| chr_4 | g16376 | g16376.t1 | TTS | g16376.t1 | NA | NA |
Sequences
>g16376.t1 Gene=g16376 Length=630
ATGTCAAGTTCAACACTCGATGTTGACACATTGAGTAAATCAATGCAACATATGGGAACA
ACTGATTATGCAGTTTTTATTTTAATGCTTGTTTTTTCATCACTTGTCGGTCTTTATTTT
GGCTATCAAGATCATAAAATGAAGAAACAAAATAAAAGAAATGGAATTGAAGATGATGCT
GCAAATTATTTAGTTGGTGGAAGAAATATGCAAGTTTTGCCTGTTGCTCTTTCTATGATT
GCCTCTTTTGTGTCTGGAGTAACTATATTAGGAACATGTACAGAAGTTTATCTTTATGGT
TCACAATATTCGCTTTTTTTGATTGCAATTTTCTTTGGTACAATAATTTCTCACTTTACA
ATTATTCCTGTTATTCACCATTGTAAAATAAATTCATTTTATGAAAGTAATTTAATTGCC
TGCATTAGCGTTCAACCAAATGACAGAATCAATGTACATATTATTACTTCTGTTTCAATT
TTTATTTGTGTCATATACACATCATTGGGTGGAATAAAAGCTGTTGTTTGGACTGATGGA
GAACGAATTGAACCAATTGACTTCAATTTTGATCCAACAATTCGTCATTCATTTTGGACT
TTAGTAATTGGTGGTTCAATTTGTGGCTAA
>g16376.t1 Gene=g16376 Length=209
MSSSTLDVDTLSKSMQHMGTTDYAVFILMLVFSSLVGLYFGYQDHKMKKQNKRNGIEDDA
ANYLVGGRNMQVLPVALSMIASFVSGVTILGTCTEVYLYGSQYSLFLIAIFFGTIISHFT
IIPVIHHCKINSFYESNLIACISVQPNDRINVHIITSVSIFICVIYTSLGGIKAVVWTDG
ERIEPIDFNFDPTIRHSFWTLVIGGSICG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g16376.t1 | Gene3D | G3DSA:1.20.1730.10 | - | 51 | 136 | 1.0E-15 |
| 12 | g16376.t1 | Gene3D | G3DSA:1.20.1730.10 | - | 140 | 180 | 6.6E-6 |
| 3 | g16376.t1 | PANTHER | PTHR42985 | SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER | 13 | 135 | 2.6E-51 |
| 6 | g16376.t1 | PANTHER | PTHR42985:SF5 | LP24461P | 13 | 135 | 2.6E-51 |
| 4 | g16376.t1 | PANTHER | PTHR42985 | SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER | 149 | 179 | 2.6E-51 |
| 7 | g16376.t1 | PANTHER | PTHR42985:SF5 | LP24461P | 149 | 179 | 2.6E-51 |
| 2 | g16376.t1 | PANTHER | PTHR42985 | SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER | 180 | 207 | 2.6E-51 |
| 5 | g16376.t1 | PANTHER | PTHR42985:SF5 | LP24461P | 180 | 207 | 2.6E-51 |
| 1 | g16376.t1 | Pfam | PF00474 | Sodium:solute symporter family | 63 | 125 | 2.9E-6 |
| 18 | g16376.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 22 | - |
| 19 | g16376.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 23 | 42 | - |
| 16 | g16376.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 43 | 71 | - |
| 21 | g16376.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 72 | 91 | - |
| 17 | g16376.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 92 | 102 | - |
| 20 | g16376.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 103 | 125 | - |
| 15 | g16376.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 126 | 209 | - |
| 14 | g16376.t1 | ProSiteProfiles | PS50283 | Sodium:solute symporter family profile. | 19 | 135 | 12.584 |
| 8 | g16376.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 42 | - |
| 10 | g16376.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 72 | 94 | - |
| 11 | g16376.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 104 | 126 | - |
| 9 | g16376.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 150 | 172 | - |
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