General information for g1834.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Organic cation transporter protein.
Parent gene
- The parent gene g1834 is located on chr_3: 13230211..13231500 (+ 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 | g1834 | g1834.t1 | TSS | g1834.t1 | 13229588 | 13229588 |
| chr_3 | g1834 | g1834.t1 | isoform | g1834.t1 | 13230211 | 13231500 |
| chr_3 | g1834 | g1834.t1 | exon | g1834.t1.exon1 | 13230211 | 13230227 |
| chr_3 | g1834 | g1834.t1 | cds | g1834.t1.CDS1 | 13230211 | 13230227 |
| chr_3 | g1834 | g1834.t1 | exon | g1834.t1.exon2 | 13230282 | 13231500 |
| chr_3 | g1834 | g1834.t1 | cds | g1834.t1.CDS2 | 13230282 | 13231500 |
| chr_3 | g1834 | g1834.t1 | TTS | g1834.t1 | 13232111 | 13232111 |
Sequences
>g1834.t1 Gene=g1834 Length=1236
ATGGCATTCGGTGATTACCTAGGTCGTAAAATAACTTTGATTGTGGCAACATTCTTCATG
TCGCTCACAGGAATCGGACAGGCAATGTCAACTAGCTATGAAATGTTTGTGTTTTTTGCA
TTTCTCAATGCAATAGGAATTTCTGGAATTTATCCTTTAGCGTTTGTTCTTGGATTAGAG
ATGGTCGGAAAAAATAAAAGAGCTGTCGCTGGAATTATTTGCAATTATTCTTATGCTATT
GGTGTATCACTTTTAGGAGTAATGGCTTGGCAATATGATAATTGGATTATTCTGCAACTT
GTGATATCAATTCCACCAATGATATTGTTTATTTATTATTGGATTGTTCCTGAAAGTGTT
CGTTGGTTGCTTGCAAAAAATCGAAACATTGAAGCAATAAAAATTTTGAAGAAAGCTGCT
GAAGTCAATAAGAGCACAATTTCTGAAAGCACAATGAAAAGTTTCAATGAACTTGAACAA
AATGATGGCAAGAAAATAAACGAAAAGTCAGACAAGAAGGAAATGATTGATGCAGTCATA
AAAATGATGACATCAAAAGTTATGATGATGCGTGTTATTATTTTACTTTACAATTTTGCA
GTTAATGCATTGGTTTATTTTGGATTATCACTCAATTCCGTGTCGTTGAGTGGTAACAAA
TACTTGAATTTTATCCTTGTTAGTTTAGTTGAAATACCTGGCTATTATCTTGGATATATA
TCAATTGAAAAATTTGGTCGTGTATTTGGATTTGCAGGTTCAATGTTTCTTTGTGGAGTT
ACATGCATTTTATGCGGCTATGCTCAATCAGTTTGGTTACAAGTTGCTCTCTTTTTGATA
GGCAAGCTTGGTATTACTTGCGCATTCTCAGTGATTTATGTTCACGCGACTGAAATGATG
CCAACTGTTATAAGATCAAGTTGTGTTGGAATTTTTGCAACAATTAGTAGAACTGGTGCT
CTATTAAGTCCTTTTGCACCATTTTTGGCAAAATATTACAAGCCGTTGCCTTACATTGTT
TTTGGAGCAACAGCTTTGTTTGGCGGTTTAATATATTTGAGTTTACCAGAGACATTGAAT
AAAAAATTGCCAAACACTGTAGAAGATGCTATGAAAATAGATTTCCAAATGGCACCAAAT
GAAGAAGGAGAAATACCGCTTCAAGTGAGAATTGCAGCAACCGATTTATCCAGAAGTCCA
GAAATATTGAGTCAAGCAACTTCGAAACAAAAATAA
>g1834.t1 Gene=g1834 Length=411
MAFGDYLGRKITLIVATFFMSLTGIGQAMSTSYEMFVFFAFLNAIGISGIYPLAFVLGLE
MVGKNKRAVAGIICNYSYAIGVSLLGVMAWQYDNWIILQLVISIPPMILFIYYWIVPESV
RWLLAKNRNIEAIKILKKAAEVNKSTISESTMKSFNELEQNDGKKINEKSDKKEMIDAVI
KMMTSKVMMMRVIILLYNFAVNALVYFGLSLNSVSLSGNKYLNFILVSLVEIPGYYLGYI
SIEKFGRVFGFAGSMFLCGVTCILCGYAQSVWLQVALFLIGKLGITCAFSVIYVHATEMM
PTVIRSSCVGIFATISRTGALLSPFAPFLAKYYKPLPYIVFGATALFGGLIYLSLPETLN
KKLPNTVEDAMKIDFQMAPNEEGEIPLQVRIAATDLSRSPEILSQATSKQK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 27 | g1834.t1 | CDD | cd17317 | MFS_SLC22 | 3 | 356 | 1.59976E-78 |
| 5 | g1834.t1 | Gene3D | G3DSA:1.20.1250.20 | MFS general substrate transporter like domains | 1 | 369 | 2.1E-61 |
| 2 | g1834.t1 | PANTHER | PTHR24064 | SOLUTE CARRIER FAMILY 22 MEMBER | 3 | 373 | 2.4E-111 |
| 3 | g1834.t1 | PANTHER | PTHR24064:SF335 | FI24011P1-RELATED | 3 | 373 | 2.4E-111 |
| 1 | g1834.t1 | Pfam | PF00083 | Sugar (and other) transporter | 3 | 363 | 1.6E-26 |
| 6 | g1834.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 21 | g1834.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 29 | - |
| 12 | g1834.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 30 | 34 | - |
| 26 | g1834.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 35 | 57 | - |
| 11 | g1834.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 58 | 68 | - |
| 23 | g1834.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 69 | 90 | - |
| 13 | g1834.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 91 | 95 | - |
| 18 | g1834.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 96 | 116 | - |
| 8 | g1834.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 117 | 187 | - |
| 19 | g1834.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 188 | 209 | - |
| 16 | g1834.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 210 | 220 | - |
| 24 | g1834.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 221 | 242 | - |
| 10 | g1834.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 243 | 248 | - |
| 20 | g1834.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 249 | 269 | - |
| 14 | g1834.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 270 | 274 | - |
| 17 | g1834.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 275 | 296 | - |
| 9 | g1834.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 297 | 307 | - |
| 22 | g1834.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 308 | 330 | - |
| 15 | g1834.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 331 | 335 | - |
| 25 | g1834.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 336 | 355 | - |
| 7 | g1834.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 356 | 411 | - |
| 38 | g1834.t1 | ProSiteProfiles | PS50850 | Major facilitator superfamily (MFS) profile. | 1 | 360 | 19.353 |
| 4 | g1834.t1 | SUPERFAMILY | SSF103473 | MFS general substrate transporter | 3 | 364 | 1.29E-41 |
| 29 | g1834.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 30 | - |
| 36 | g1834.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 35 | 57 | - |
| 31 | g1834.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 69 | 91 | - |
| 28 | g1834.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 95 | 117 | - |
| 33 | g1834.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 192 | 211 | - |
| 37 | g1834.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 221 | 240 | - |
| 30 | g1834.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 245 | 267 | - |
| 32 | g1834.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 271 | 293 | - |
| 35 | g1834.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 306 | 328 | - |
| 34 | g1834.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 338 | 355 | - |
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.
