General information for g1833.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Organic cation transporter protein.
Parent gene
- The parent gene g1833 is located on chr_3: 13226727..13227653 (- 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 | g1833 | g1833.t1 | isoform | g1833.t1 | 13226727 | 13227653 |
| chr_3 | g1833 | g1833.t1 | exon | g1833.t1.exon1 | 13226727 | 13227653 |
| chr_3 | g1833 | g1833.t1 | cds | g1833.t1.CDS1 | 13226727 | 13227653 |
| chr_3 | g1833 | g1833.t1 | TSS | g1833.t1 | NA | NA |
| chr_3 | g1833 | g1833.t1 | TTS | g1833.t1 | NA | NA |
Sequences
>g1833.t1 Gene=g1833 Length=927
ATGGCTTGGCAATATGATAATTGGATTATTCTGCAACTTGTGATATCAATTCCACCAATG
ATATTGTTTATTTATTATTGGATTGTTCCTGAAAGTGTTCGTTGGTTGCTTGCAAAAAAT
CGAAATACTGAAGCAATAAAAATTTTGAAGAAAGCTGCTGAAGTCAATAAGAGCACAATT
TCTGAAAGCACAATGAAAAGTTTCAATGAACTTGAACAAAATGATGGCAAGAAAATAAAC
GAAATGTCAGACAAGAAGGAAATGATTGATGCAGTCATAAAAATGATGACATCAAAAGTT
ATGATGATGCGTGTCATTATTTTACTTTACAATTTTGCAGTTAATGCATTGGTTTATTTT
GGATTATCACTCAATTCCGTGTCGTTGAGTGGTAACAAGTACTTGAATTTTATTCTTGTT
AGTTTAGTTGAAATACCTGGCTATTATCTTGGATATATATCAATTGAAAAATTTGGTCGT
GTATTTGGATTTGCAGGTTCAATGTTTCTTTGTGGAGTTACATGCATTTTATGCGGCTAC
AGTCACTCAATATGGCTACAAATATCATTATTCTTAATAGGAAAATTAGGCATTACATGT
TCATTCTCTATAATATTTGTGCACGCGACTGAAATGATGCCAACTCTTATAAGATCAAGT
TGTGTTGGATTTTTTTCAACAATGTGTAGAATTGGTGCTCTATTAAGTCCTTTTGCACCA
TTTTTGGCAAAATATTATGAGCCATTGCCTTACATTGTTTTTGGAGCAACAGCTTTATTT
GGCGGTTTAATATATTTGAGTTTACCAGAAACATTGAATAAAAAATTGCCAAACACTGTA
GAAGATGCTATAAAAATAGATTTCAACATAGAATCTAGTGAAGAATGTGAAATACCTTTA
CAAGAAAAGAAATTTGAAACATTTTGA
>g1833.t1 Gene=g1833 Length=308
MAWQYDNWIILQLVISIPPMILFIYYWIVPESVRWLLAKNRNTEAIKILKKAAEVNKSTI
SESTMKSFNELEQNDGKKINEMSDKKEMIDAVIKMMTSKVMMMRVIILLYNFAVNALVYF
GLSLNSVSLSGNKYLNFILVSLVEIPGYYLGYISIEKFGRVFGFAGSMFLCGVTCILCGY
SHSIWLQISLFLIGKLGITCSFSIIFVHATEMMPTLIRSSCVGFFSTMCRIGALLSPFAP
FLAKYYEPLPYIVFGATALFGGLIYLSLPETLNKKLPNTVEDAIKIDFNIESSEECEIPL
QEKKFETF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g1833.t1 | Gene3D | G3DSA:1.20.1250.20 | MFS general substrate transporter like domains | 1 | 281 | 2.2E-41 |
| 2 | g1833.t1 | PANTHER | PTHR24064 | SOLUTE CARRIER FAMILY 22 MEMBER | 2 | 289 | 1.1E-89 |
| 3 | g1833.t1 | PANTHER | PTHR24064:SF335 | FI24011P1-RELATED | 2 | 289 | 1.1E-89 |
| 1 | g1833.t1 | Pfam | PF00083 | Sugar (and other) transporter | 6 | 276 | 6.7E-20 |
| 20 | g1833.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 28 | g1833.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 29 | - |
| 16 | g1833.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 30 | 100 | - |
| 26 | g1833.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 101 | 122 | - |
| 21 | g1833.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 123 | 133 | - |
| 25 | g1833.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 134 | 155 | - |
| 14 | g1833.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 156 | 161 | - |
| 23 | g1833.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 182 | - |
| 18 | g1833.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 183 | 187 | - |
| 27 | g1833.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 188 | 209 | - |
| 17 | g1833.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 210 | 220 | - |
| 22 | g1833.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 221 | 243 | - |
| 19 | g1833.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 244 | 248 | - |
| 24 | g1833.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 249 | 268 | - |
| 15 | g1833.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 269 | 308 | - |
| 13 | g1833.t1 | ProSiteProfiles | PS50850 | Major facilitator superfamily (MFS) profile. | 1 | 273 | 9.57 |
| 11 | g1833.t1 | SUPERFAMILY | SSF103473 | MFS general substrate transporter | 6 | 277 | 9.42E-27 |
| 6 | g1833.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 10 | 29 | - |
| 10 | g1833.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 105 | 124 | - |
| 4 | g1833.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 134 | 153 | - |
| 8 | g1833.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 158 | 180 | - |
| 5 | g1833.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 184 | 206 | - |
| 9 | g1833.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 219 | 241 | - |
| 7 | g1833.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 251 | 268 | - |
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:0055085 | transmembrane transport | BP |
| GO:0016021 | integral component of membrane | CC |
| 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