General information for g3434.t4
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 g3434 is located on chr_3: 25417101..25418936 (- 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_3 | g3434 | g3434.t4 | TTS | g3434.t4 | 25415495 | 25415495 |
| chr_3 | g3434 | g3434.t4 | isoform | g3434.t4 | 25415651 | 25417570 |
| chr_3 | g3434 | g3434.t4 | exon | g3434.t4.exon1 | 25415651 | 25416112 |
| chr_3 | g3434 | g3434.t4 | cds | g3434.t4.CDS1 | 25415651 | 25416112 |
| chr_3 | g3434 | g3434.t4 | exon | g3434.t4.exon2 | 25416168 | 25416657 |
| chr_3 | g3434 | g3434.t4 | cds | g3434.t4.CDS2 | 25416168 | 25416657 |
| chr_3 | g3434 | g3434.t4 | exon | g3434.t4.exon3 | 25416767 | 25416864 |
| chr_3 | g3434 | g3434.t4 | cds | g3434.t4.CDS3 | 25416767 | 25416864 |
| chr_3 | g3434 | g3434.t4 | exon | g3434.t4.exon4 | 25416926 | 25416968 |
| chr_3 | g3434 | g3434.t4 | cds | g3434.t4.CDS4 | 25416926 | 25416968 |
| chr_3 | g3434 | g3434.t4 | exon | g3434.t4.exon5 | 25417087 | 25417240 |
| chr_3 | g3434 | g3434.t4 | cds | g3434.t4.CDS5 | 25417087 | 25417235 |
| chr_3 | g3434 | g3434.t4 | exon | g3434.t4.exon6 | 25417302 | 25417370 |
| chr_3 | g3434 | g3434.t4 | exon | g3434.t4.exon7 | 25417480 | 25417570 |
| chr_3 | g3434 | g3434.t4 | TSS | g3434.t4 | 25417573 | 25417573 |
Sequences
>g3434.t4 Gene=g3434 Length=1407
TCAATCGAGTCACTTACTATATCGTAGATGATAATATGTAATACTATTGTTGCTTAATGT
ACATTAATATATCATACTTTATTCACAGATTTGTCTGGCATTGATGTACATTTGATAACA
CCATTAACGTGTGTCTGCTGCATTTTCTATACATGTGTTGGTGGAATGAAAGCGGTGATT
TACACAGATGTCTTTCAATCGCTAATGATGTTTGGAGCAATGTTGTTAGTCATTATTAAA
GGCACTTACGATATAGGCGGATTGGATGTTGTGATTACGCGCAATGTCGCGAGTAAACGT
ATCGAAGCACCAGACACATCATTTGACTTAACTGAACGCCATACAATATGGTCGTTGTGC
ATAGGAGGTTTTGTATATTGGCTTAAAGCGAACGCAATCAGTCAAAATATGATTCAACGT
TATTTATCATTGCCAAGTTTAGCGGCAGCCAAAAGAGCACTATGGATCTTTATCTCTGGC
GTTTTTATTTTACTGGCCATTTGCTCCTATTGTGGATTATTGATTTATGCAACCTACTTT
GAATGTGACCCGCTTACAACAAAACTAGTCAAAGCAAAAGATCAATTGCTACCGCTGCTT
GTTATGGACATTTTGGGTGAATATCCAGGATTAGTTGGCATGTTTGTCGCTGGAGTATTT
TCTGCTGCACTCTCGTCACTCTCAACGGGACTTAACAGTATGTCAGCAGTAATTTTAGAA
GACTTCTTTAAACCATTCTCGAGAAAGCCACTGACCGATCGTCAGACCAAATACATCATG
AGAAGTGTTGTAGTGATTTTTGGTGGCATTTGTGTGGCATTAGTTTATGTAGTTGAACAT
TTGGGCTCCGTGCTAATGCTCTCAATGTCGCTTGGCAGCATAGCACAAGGTCCACTGCTT
GGTGTATTTACATGTGGTGTATTATTTCCATGGGTGACGGGAACTGGCGCATTGGTGGGC
AGTGCAACAGCTCTATCATTTATGACGTGGCTTTGCATCAGTGCTCAACGGGCGATCTCA
ACAGGCGAATTGAAATTCAGTACTAAGGAAATTTCTACAAGTGGCTGCACTTACCATTTT
ATTGACGCAGATCCAATGAACATGTTAGCCATCAATACGACGGCAGTATCGATTCCAAAC
TACACGACATCGGAGCCAACTGGTTTTCAAATTCATCACATTTCCTACATATGGTATACA
CTCGTTGGCAGCGCAATTTGTATCATTGTTTCGCTAATCACGTCATATTTCACGGGACCT
AATAATCCTACCGACTTGAATCCGAATTTACTTGCACCATTTGTGCGAAAATTAATCACA
GCAAGAAACACTACGACGACAATAACAGCGGCAGCATCAAAAAAGAAATCCATTTATCGT
GGCCGCGATGATGAAAGTCAATTATGA
>g3434.t4 Gene=g3434 Length=413
MKAVIYTDVFQSLMMFGAMLLVIIKGTYDIGGLDVVITRNVASKRIEAPDTSFDLTERHT
IWSLCIGGFVYWLKANAISQNMIQRYLSLPSLAAAKRALWIFISGVFILLAICSYCGLLI
YATYFECDPLTTKLVKAKDQLLPLLVMDILGEYPGLVGMFVAGVFSAALSSLSTGLNSMS
AVILEDFFKPFSRKPLTDRQTKYIMRSVVVIFGGICVALVYVVEHLGSVLMLSMSLGSIA
QGPLLGVFTCGVLFPWVTGTGALVGSATALSFMTWLCISAQRAISTGELKFSTKEISTSG
CTYHFIDADPMNMLAINTTAVSIPNYTTSEPTGFQIHHISYIWYTLVGSAICIIVSLITS
YFTGPNNPTDLNPNLLAPFVRKLITARNTTTTITAAASKKKSIYRGRDDESQL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g3434.t4 | Gene3D | G3DSA:1.20.1730.10 | - | 1 | 375 | 5.4E-64 |
| 2 | g3434.t4 | PANTHER | PTHR42985:SF33 | FI02094P | 1 | 399 | 6.8E-178 |
| 3 | g3434.t4 | PANTHER | PTHR42985 | SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER | 1 | 399 | 6.8E-178 |
| 1 | g3434.t4 | Pfam | PF00474 | Sodium:solute symporter family | 1 | 266 | 3.0E-20 |
| 13 | g3434.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 27 | g3434.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 28 | - |
| 18 | g3434.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 29 | 58 | - |
| 23 | g3434.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 77 | - |
| 14 | g3434.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 78 | 97 | - |
| 21 | g3434.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 98 | 124 | - |
| 19 | g3434.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 125 | 155 | - |
| 26 | g3434.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 156 | 183 | - |
| 16 | g3434.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 184 | 202 | - |
| 25 | g3434.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 203 | 223 | - |
| 20 | g3434.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 224 | 242 | - |
| 24 | g3434.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 243 | 276 | - |
| 15 | g3434.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 277 | 340 | - |
| 22 | g3434.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 341 | 362 | - |
| 17 | g3434.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 363 | 413 | - |
| 12 | g3434.t4 | ProSiteProfiles | PS50283 | Sodium:solute symporter family profile. | 1 | 283 | 27.58 |
| 10 | g3434.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 9 | 31 | - |
| 9 | g3434.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 78 | - |
| 8 | g3434.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 99 | 121 | - |
| 6 | g3434.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 150 | 172 | - |
| 7 | g3434.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 207 | 229 | - |
| 5 | g3434.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 244 | 266 | - |
| 4 | g3434.t4 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 341 | 363 | - |
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