Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Facilitated trehalose transporter Tret1.

Parent gene

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.t3 TSS g12354.t3 22809937 22809937
chr_1 g12354 g12354.t3 isoform g12354.t3 22810572 22811662
chr_1 g12354 g12354.t3 exon g12354.t3.exon1 22810572 22811662
chr_1 g12354 g12354.t3 cds g12354.t3.CDS1 22810693 22811640
chr_1 g12354 g12354.t3 TTS g12354.t3 22811723 22811723

Sequences

>g12354.t3 Gene=g12354 Length=1091
GGTAATTTTAGGAAGATTTATAATTGGTATTGCAGCATCATCTTTTAATTTCAATGTTTT
GGTTTACATTGGTGAATGTGCATCAAAAGAAATTCGTGGAATTTTATTAAGTTTCTTTGA
AATGAGTTTAAAATTTGGAATTTTATTCAGTTATGTTATTGGCTCATTTACTAAGCAACA
AGTGACAAACGCTGTTTGTGCATCAATCGTAATTTTTTATGCAATTTCTTTCTCATTTTT
ACCAGAAAGTCCGCTTTATTTAATGAAGCAGCACAAAGCAGAAAAAGCCAAAAAATCCTT
AATTCGTCTTCGCGGAAGTAATTTCAAAATTGACGACGAAATGACAAATTTAAAGGAAGA
AATTGAAGAACTTGAAAGAACAAAAAAGCCATTTTGGCAAGAACTTTCCATAAAAGCGAC
TCGAAAAGCTTTTTTTATTTTAATTGCAATGTTTTTCTTTTTCCAAATGTGCGGCATAAA
TGCAATAGTTTACTATACAACAATAATTTTCATTGAAAGTGGTTTGACAATTGATCCATT
CATAGCGACGTGCATACTTGGCATAATTCAAGTTGTTTCAATTTCATGCACTTTAGCATT
TGTTGATCGATGTGGAAGAAAGCCTTTGTTAATTATTTCAAATGCAGTTATGATTTTTGG
ATTGTTTGGATTTGGAATTTATTTTCATATAAAAGAGAACATAAATGTTAGTGGATTTGA
ATTGCTGCCATTGTTTATGCTTGGTATTTTTATGATTGGATTTTCTATTGGAGTTGGAAA
TGTAACTTTTGTACTTATGGGTGAAATGTTTTCGCTTAATGCTAAAAGAGTAAATTTTTT
GAAAAAAAATTTTAAACTTTTATTTATTTTTTTTTTATTTTTAGTTTTTTGGACCATTAA
CACAGTTTATGAATTATCTCACATCATTTTCTATTGCAATTTTCTTTCCTTTAGTTGCAA
ATTCAATTGGAATGCATTTTGCTTTTTACTTTTTTGGACTTTGTTGTATATTTGCAATTA
TTTTTATTATTTTCATTCTTCCAGAAACGAAAGGAAAAACTCTAGTTGAAATTCAAAAAT
TATTATCATAA

>g12354.t3 Gene=g12354 Length=315
MSLKFGILFSYVIGSFTKQQVTNAVCASIVIFYAISFSFLPESPLYLMKQHKAEKAKKSL
IRLRGSNFKIDDEMTNLKEEIEELERTKKPFWQELSIKATRKAFFILIAMFFFFQMCGIN
AIVYYTTIIFIESGLTIDPFIATCILGIIQVVSISCTLAFVDRCGRKPLLIISNAVMIFG
LFGFGIYFHIKENINVSGFELLPLFMLGIFMIGFSIGVGNVTFVLMGEMFSLNAKRVNFL
KKNFKLLFIFFLFLVFWTINTVYELSHIIFYCNFLSFSCKFNWNAFCFLLFWTLLYICNY
FYYFHSSRNERKNSS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g12354.t3 Coils Coil Coil 67 87 -
12 g12354.t3 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 1 309 1.8E-50
2 g12354.t3 PANTHER PTHR48021:SF63 GH07001P-RELATED 3 299 3.1E-53
3 g12354.t3 PANTHER PTHR48021 - 3 299 3.1E-53
1 g12354.t3 Pfam PF00083 Sugar (and other) transporter 2 237 3.0E-40
20 g12354.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
26 g12354.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 40 -
15 g12354.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 41 102 -
23 g12354.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 103 128 -
19 g12354.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 129 139 -
24 g12354.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 140 161 -
14 g12354.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 162 167 -
25 g12354.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 168 190 -
18 g12354.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 191 201 -
28 g12354.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 202 225 -
17 g12354.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 226 245 -
22 g12354.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 246 263 -
21 g12354.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 264 282 -
27 g12354.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 283 304 -
16 g12354.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 305 315 -
11 g12354.t3 SUPERFAMILY SSF103473 MFS general substrate transporter 6 232 6.02E-21
4 g12354.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 42 -
7 g12354.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 107 129 -
10 g12354.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 139 161 -
6 g12354.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 168 190 -
5 g12354.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 205 227 -
9 g12354.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 248 270 -
8 g12354.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 285 304 -

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