General information for g12354.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Facilitated trehalose transporter Tret1.
Parent gene
- The parent gene g12354 is located on chr_1: 22810572..22811662 (+ 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_1 | g12354 | g12354.t1 | TSS | g12354.t1 | 22809937 | 22809937 |
| chr_1 | g12354 | g12354.t1 | isoform | g12354.t1 | 22810331 | 22811662 |
| chr_1 | g12354 | g12354.t1 | exon | g12354.t1.exon1 | 22810331 | 22810507 |
| chr_1 | g12354 | g12354.t1 | cds | g12354.t1.CDS1 | 22810331 | 22810507 |
| chr_1 | g12354 | g12354.t1 | exon | g12354.t1.exon2 | 22810573 | 22811400 |
| chr_1 | g12354 | g12354.t1 | cds | g12354.t1.CDS2 | 22810573 | 22811400 |
| chr_1 | g12354 | g12354.t1 | exon | g12354.t1.exon3 | 22811456 | 22811662 |
| chr_1 | g12354 | g12354.t1 | cds | g12354.t1.CDS3 | 22811456 | 22811662 |
| chr_1 | g12354 | g12354.t1 | TTS | g12354.t1 | 22811723 | 22811723 |
Sequences
>g12354.t1 Gene=g12354 Length=1212
ATGTCACAAAATCAATTTTCATGGGCTGTAGCAGCAAATTTAATTGGTGGATGTTTTGGT
TGCTTAATCACAGGCTTAATTCGCAATAAATTTGGAACAAAAATTTCAATTTATATTTTT
TGTGTTCCAAGCTTTTGTGGCTGGATTTTGTTGACATTTTCATTTAATTGGTGGATGGTA
ATTTTAGGAAGATTTATAATTGGTATTGCAGCATCATCTTTTAATTTCAATGTTTTGGTT
TACATTGGTGAATGTGCATCAAAAGAAATTCGTGGAATTTTATTAAGTTTCTTTGAAATG
AGTTTAAAATTTGGAATTTTATTCAGTTATGTTATTGGCTCATTTACTAAGCAACAAGTG
ACAAACGCTGTTTGTGCATCAATCGTAATTTTTTATGCAATTTCTTTCTCATTTTTACCA
GAAAGTCCGCTTTATTTAATGAAGCAGCACAAAGCAGAAAAAGCCAAAAAATCCTTAATT
CGTCTTCGCGGAAGTAATTTCAAAATTGACGACGAAATGACAAATTTAAAGGAAGAAATT
GAAGAACTTGAAAGAACAAAAAAGCCATTTTGGCAAGAACTTTCCATAAAAGCGACTCGA
AAAGCTTTTTTTATTTTAATTGCAATGTTTTTCTTTTTCCAAATGTGCGGCATAAATGCA
ATAGTTTACTATACAACAATAATTTTCATTGAAAGTGGTTTGACAATTGATCCATTCATA
GCGACGTGCATACTTGGCATAATTCAAGTTGTTTCAATTTCATGCACTTTAGCATTTGTT
GATCGATGTGGAAGAAAGCCTTTGTTAATTATTTCAAATGCAGTTATGATTTTTGGATTG
TTTGGATTTGGAATTTATTTTCATATAAAAGAGAACATAAATGTTAGTGGATTTGAATTG
CTGCCATTGTTTATGCTTGGTATTTTTATGATTGGATTTTCTATTGGAGTTGGAAATGTA
ACTTTTGTACTTATGGGTGAAATGTTTTCGCTTAATGCTAAAAGATTTTTTGGACCATTA
ACACAGTTTATGAATTATCTCACATCATTTTCTATTGCAATTTTCTTTCCTTTAGTTGCA
AATTCAATTGGAATGCATTTTGCTTTTTACTTTTTTGGACTTTGTTGTATATTTGCAATT
ATTTTTATTATTTTCATTCTTCCAGAAACGAAAGGAAAAACTCTAGTTGAAATTCAAAAA
TTATTATCATAA
>g12354.t1 Gene=g12354 Length=403
MSQNQFSWAVAANLIGGCFGCLITGLIRNKFGTKISIYIFCVPSFCGWILLTFSFNWWMV
ILGRFIIGIAASSFNFNVLVYIGECASKEIRGILLSFFEMSLKFGILFSYVIGSFTKQQV
TNAVCASIVIFYAISFSFLPESPLYLMKQHKAEKAKKSLIRLRGSNFKIDDEMTNLKEEI
EELERTKKPFWQELSIKATRKAFFILIAMFFFFQMCGINAIVYYTTIIFIESGLTIDPFI
ATCILGIIQVVSISCTLAFVDRCGRKPLLIISNAVMIFGLFGFGIYFHIKENINVSGFEL
LPLFMLGIFMIGFSIGVGNVTFVLMGEMFSLNAKRFFGPLTQFMNYLTSFSIAIFFPLVA
NSIGMHFAFYFFGLCCIFAIIFIIFILPETKGKTLVEIQKLLS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g12354.t1 | Coils | Coil | Coil | 166 | 186 | - |
| 5 | g12354.t1 | Gene3D | G3DSA:1.20.1250.20 | MFS general substrate transporter like domains | 1 | 403 | 6.1E-98 |
| 2 | g12354.t1 | PANTHER | PTHR48021:SF63 | GH07001P-RELATED | 2 | 401 | 2.9E-98 |
| 3 | g12354.t1 | PANTHER | PTHR48021 | - | 2 | 401 | 2.9E-98 |
| 1 | g12354.t1 | Pfam | PF00083 | Sugar (and other) transporter | 4 | 401 | 4.9E-79 |
| 16 | g12354.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 20 | g12354.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 28 | - |
| 8 | g12354.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 29 | 34 | - |
| 25 | g12354.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 35 | 55 | - |
| 15 | g12354.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 56 | 60 | - |
| 22 | g12354.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 61 | 82 | - |
| 9 | g12354.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 83 | 93 | - |
| 28 | g12354.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 94 | 113 | - |
| 18 | g12354.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 114 | 118 | - |
| 21 | g12354.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 119 | 139 | - |
| 11 | g12354.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 140 | 201 | - |
| 27 | g12354.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 202 | 227 | - |
| 17 | g12354.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 228 | 238 | - |
| 26 | g12354.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 239 | 260 | - |
| 12 | g12354.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 261 | 266 | - |
| 19 | g12354.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 267 | 289 | - |
| 14 | g12354.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 290 | 300 | - |
| 24 | g12354.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 301 | 324 | - |
| 7 | g12354.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 325 | 335 | - |
| 23 | g12354.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 336 | 356 | - |
| 13 | g12354.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 357 | 367 | - |
| 29 | g12354.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 368 | 387 | - |
| 10 | g12354.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 388 | 403 | - |
| 41 | g12354.t1 | ProSiteProfiles | PS50850 | Major facilitator superfamily (MFS) profile. | 1 | 391 | 25.266 |
| 4 | g12354.t1 | SUPERFAMILY | SSF103473 | MFS general substrate transporter | 1 | 397 | 1.83E-51 |
| 42 | g12354.t1 | TIGRFAM | TIGR00879 | SP: MFS transporter, sugar porter (SP) family | 4 | 398 | 2.5E-72 |
| 40 | g12354.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 5 | 27 | - |
| 39 | g12354.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 34 | 53 | - |
| 36 | g12354.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 57 | 79 | - |
| 37 | g12354.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 92 | 114 | - |
| 34 | g12354.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 124 | 146 | - |
| 32 | g12354.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 206 | 228 | - |
| 35 | g12354.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 238 | 260 | - |
| 31 | g12354.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 267 | 289 | - |
| 38 | g12354.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 304 | 326 | - |
| 33 | g12354.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 338 | 360 | - |
| 30 | g12354.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 365 | 387 | - |
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:0016021 | integral component of membrane | CC |
| GO:0022857 | transmembrane transporter activity | MF |
KEGG
Orthology
- This transcript has been annotated with K08139 (MFS transporter, SP family, sugar:H+ symporter)
Pathway
- This transcript belongs to the following pathways
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