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 g11244 g11244.t5 TSS g11244.t5 14873220 14873220
chr_1 g11244 g11244.t5 isoform g11244.t5 14873227 14874756
chr_1 g11244 g11244.t5 exon g11244.t5.exon1 14873227 14874431
chr_1 g11244 g11244.t5 cds g11244.t5.CDS1 14873775 14874431
chr_1 g11244 g11244.t5 exon g11244.t5.exon2 14874496 14874756
chr_1 g11244 g11244.t5 cds g11244.t5.CDS2 14874496 14874756
chr_1 g11244 g11244.t5 TTS g11244.t5 14874794 14874794

Sequences

>g11244.t5 Gene=g11244 Length=1466
ATGTGGTCGTTGGTGAGAACAACCATTGTTGGTAAGAGAATGAGAATTTTTTTGCTTCAT
GCAAATTTTAGTGTGTTCAAATTATTCTAGCGAATATTGGTTCATTTTTCTTTGGAGTTT
CATTAGTATGGTCATCAATAATTGGTGTGCAAATTGTCGAAAATGAAAAATATAAATTTT
GGATAACGAAAACTCAATTTGGGATTGTTGTGAGTGCATTATCATTTGGTGCAGCATGCT
CATGTATTATCTCAGGAGTCGTTCGACATAGTTTCGGTACAAGATTCACAATATTCATAT
TTAGCTCCTTTGCAACTATTGGTTCCATTTTAATAACCGTTCCACAAAATTTATTAATGG
TAAGAATGTCTACCTACCTATCTTCCTAGTATAATTGAATTAACAAGGTTATGAAAATTT
TTCAGTTGATAGTGGGACGATTTCTATTAGGATTAGCTATAGGCTCTTATAGCTTCGTTA
TTCCAATTTACATAGGCGAAATTAGCTCTAGTGAATTAAGAGGAATTATGTTGAGCTATT
TTCAGATAATGTTAAACTTAGGAATACTCCTCGCTTATATACTCGGATATTTTGTAAATG
TGAACAATTTCAACATCGTTTGTGGATCTATTCCTCTGTTTTACTCAATTGCGTTTCTTG
CATTGCCTGAATCACCAGTTTTTCTAGTCAGTAAGGGAAAATATGACAAAACACATTTGA
CAATGCAACTTTTAAGAGGAAGAGAGCAAAATTTTCAACCTGAAATTGCTTCAATGAAAG
AAGAGCAGACAAAGATTGAAAAAACTAGCTTTAGTGAGCTTATGAAAGTCAAGTGTGTGA
AAAAAGCTTTAATAATCATCATGTTTCAGTTCTTTTGTTTCCAATTGAGCGGAGCTAACG
CAGTAACTTTTTATGCACAACAGATTTTCAATGATGCTGCTATGAATATAGAATCGAGTA
TAGCAGCTATAATAGTAACGACTTTTCAATTCATCACTTCAGTAATTGCAGTCCGATACA
TTAATCTTTATGGACGTAAAAAGATGATTTGTACATTCAACTTATTTTTGGTTTTATCAT
TAATGTCATTGGGCATTTATTTCATACTGAAAGACAATAATTATTTCTTAATAAGGAGTT
TAAGTTGGCTGCCATTGTTATCAATGTGCGTTTATCTCGTTACATTTTGTCTTGGAATGG
GTCCCGTCACTTACATATGGCTCGGTGAGCTCTTCATACAAAATAATGCGAAAAAAACGA
TCGCACCTCTGGGACAGATGATAAATCATACGCTTACATTTCTTATCGGACTATTCTTTC
CACTCTTGACTAATCTAATTGGCAGTGGATTTATCTTTTTTTCCTTTGCCGTCGTAACTG
TGATTGACATTATTTTCATTATTCTTTTCGTTCCTGAAACAAATGGGAAAACTTCTGAAG
AAATTCAAAATGCATTGTCAAGATGA

>g11244.t5 Gene=g11244 Length=305
MLNLGILLAYILGYFVNVNNFNIVCGSIPLFYSIAFLALPESPVFLVSKGKYDKTHLTMQ
LLRGREQNFQPEIASMKEEQTKIEKTSFSELMKVKCVKKALIIIMFQFFCFQLSGANAVT
FYAQQIFNDAAMNIESSIAAIIVTTFQFITSVIAVRYINLYGRKKMICTFNLFLVLSLMS
LGIYFILKDNNYFLIRSLSWLPLLSMCVYLVTFCLGMGPVTYIWLGELFIQNNAKKTIAP
LGQMINHTLTFLIGLFFPLLTNLIGSGFIFFSFAVVTVIDIIFIILFVPETNGKTSEEIQ
NALSR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g11244.t5 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 1 304 3.1E-60
2 g11244.t5 PANTHER PTHR48021:SF63 GH07001P-RELATED 1 302 8.8E-67
3 g11244.t5 PANTHER PTHR48021 - 1 302 8.8E-67
1 g11244.t5 Pfam PF00083 Sugar (and other) transporter 1 302 3.3E-46
20 g11244.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
27 g11244.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 39 -
17 g11244.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 40 99 -
29 g11244.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 100 124 -
19 g11244.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 125 135 -
28 g11244.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 136 155 -
16 g11244.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 156 166 -
24 g11244.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 167 187 -
22 g11244.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 188 198 -
26 g11244.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 199 225 -
15 g11244.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 226 236 -
23 g11244.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 237 257 -
21 g11244.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 258 262 -
25 g11244.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 263 288 -
18 g11244.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 289 305 -
14 g11244.t5 ProSiteProfiles PS50850 Major facilitator superfamily (MFS) profile. 1 292 12.483
12 g11244.t5 SUPERFAMILY SSF103473 MFS general substrate transporter 3 300 1.96E-22
9 g11244.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 24 -
10 g11244.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 28 47 -
6 g11244.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 101 123 -
5 g11244.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 138 160 -
4 g11244.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 167 187 -
8 g11244.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 202 224 -
11 g11244.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 237 259 -
7 g11244.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 264 286 -

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