Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Facilitated trehalose transporter Tret1-1.

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 g12621 g12621.t3 TSS g12621.t3 24819506 24819506
chr_1 g12621 g12621.t3 isoform g12621.t3 24819843 24821392
chr_1 g12621 g12621.t3 exon g12621.t3.exon1 24819843 24819873
chr_1 g12621 g12621.t3 cds g12621.t3.CDS1 24819843 24819873
chr_1 g12621 g12621.t3 exon g12621.t3.exon2 24819933 24820201
chr_1 g12621 g12621.t3 cds g12621.t3.CDS2 24819933 24820201
chr_1 g12621 g12621.t3 exon g12621.t3.exon3 24821116 24821392
chr_1 g12621 g12621.t3 cds g12621.t3.CDS3 24821116 24821391
chr_1 g12621 g12621.t3 TTS g12621.t3 NA NA

Sequences

>g12621.t3 Gene=g12621 Length=577
ATGTGGAGTGAAGTTCTACTTGCGATTTTCGCAAATGTTGGGTCATTTTATTTTGGTGTC
ACAATTGCTTGGTCATCGCCAGCTGGTCCACAAGTTATTGAGAATGAAAATTATCCATTT
TGGGTGACAAAAAATCAATTTGGACTTATTGTTGCTTGCATTTCACTTGGCGGTATTACT
TCATGTATTCCATCGGGAATTATTAGGCATAAAATTGGAACAAAAAAGACAATTTTTTAT
TTTTCATTTCCTGGTGTGATTGGATCAATTTTAATTACATTGGCAGATAATTTAGCTATG
CTACTAATAGGCAGATACTTAATTGGAATTTCACTCGGTTGTTTTATGTTTCTTGTGCAA
ATTTACGTAGGTGAAATCAGTAGCGATAAGAATCGTGGAAGTTTGTTGAACTTTATTCAC
ATTCTGGTGCATTTAGGTGTACTTTTTGTCTATGTACTTGGACAAATTGTGAGTTTGAAA
ATGTTAAATATTATTTGTGGTGCTATTCCATTATTTTATGGTATTGGATTTTTACTTATG
CCAGAAACAAAGCCATATTTGATAAGTAAAGGAAAAT

>g12621.t3 Gene=g12621 Length=192
MWSEVLLAIFANVGSFYFGVTIAWSSPAGPQVIENENYPFWVTKNQFGLIVACISLGGIT
SCIPSGIIRHKIGTKKTIFYFSFPGVIGSILITLADNLAMLLIGRYLIGISLGCFMFLVQ
IYVGEISSDKNRGSLLNFIHILVHLGVLFVYVLGQIVSLKMLNIICGAIPLFYGIGFLLM
PETKPYLISKGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g12621.t3 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 3 192 1.2E-32
2 g12621.t3 PANTHER PTHR48021:SF63 GH07001P-RELATED 8 192 2.5E-46
3 g12621.t3 PANTHER PTHR48021 - 8 192 2.5E-46
1 g12621.t3 Pfam PF00083 Sugar (and other) transporter 8 192 1.0E-21
7 g12621.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 4 -
15 g12621.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 5 26 -
10 g12621.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 27 45 -
16 g12621.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 46 66 -
9 g12621.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 67 77 -
18 g12621.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 78 95 -
11 g12621.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 96 100 -
17 g12621.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 101 123 -
6 g12621.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 124 134 -
14 g12621.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 135 156 -
12 g12621.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 157 161 -
13 g12621.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 162 180 -
8 g12621.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 181 192 -
25 g12621.t3 ProSitePatterns PS00217 Sugar transport proteins signature 2. 107 132 -
26 g12621.t3 ProSiteProfiles PS50850 Major facilitator superfamily (MFS) profile. 7 192 19.034
4 g12621.t3 SUPERFAMILY SSF103473 MFS general substrate transporter 10 191 1.31E-23
24 g12621.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 27 -
20 g12621.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 47 69 -
21 g12621.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 78 95 -
19 g12621.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 101 123 -
23 g12621.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 135 157 -
22 g12621.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 161 180 -

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.

Raw TPM values