Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t2 TSS g11244.t2 14873220 14873220
chr_1 g11244 g11244.t2 isoform g11244.t2 14873227 14874756
chr_1 g11244 g11244.t2 exon g11244.t2.exon1 14873227 14873257
chr_1 g11244 g11244.t2 cds g11244.t2.CDS1 14873227 14873257
chr_1 g11244 g11244.t2 exon g11244.t2.exon2 14873344 14873585
chr_1 g11244 g11244.t2 cds g11244.t2.CDS2 14873344 14873585
chr_1 g11244 g11244.t2 exon g11244.t2.exon3 14873652 14874431
chr_1 g11244 g11244.t2 cds g11244.t2.CDS3 14873652 14874431
chr_1 g11244 g11244.t2 exon g11244.t2.exon4 14874496 14874756
chr_1 g11244 g11244.t2 cds g11244.t2.CDS4 14874496 14874756
chr_1 g11244 g11244.t2 TTS g11244.t2 14874794 14874794

Sequences

>g11244.t2 Gene=g11244 Length=1314
ATGTGGTCGTTGGTGAGAACAACCATTGTTGTTTCATTAGTATGGTCATCAATAATTGGT
GTGCAAATTGTCGAAAATGAAAAATATAAATTTTGGATAACGAAAACTCAATTTGGGATT
GTTGTGAGTGCATTATCATTTGGTGCAGCATGCTCATGTATTATCTCAGGAGTCGTTCGA
CATAGTTTCGGTACAAGATTCACAATATTCATATTTAGCTCCTTTGCAACTATTGGTTCC
ATTTTAATAACCGTTCCACAAAATTTATTAATGTTGATAGTGGGACGATTTCTATTAGGA
TTAGCTATAGGCTCTTATAGCTTCGTTATTCCAATTTACATAGGCGAAATTAGCTCTAGT
GAATTAAGAGGAATTATGTTGAGCTATTTTCAGATAATGTTAAACTTAGGAATACTCCTC
GCTTATATACTCGGATATTTTGTAAATGTGAACAATTTCAACATCGTTTGTGGATCTATT
CCTCTGTTTTACTCAATTGCGTTTCTTGCATTGCCTGAATCACCAGTTTTTCTAGTCAGT
AAGGGAAAATATGACAAAACACATTTGACAATGCAACTTTTAAGAGGAAGAGAGCAAAAT
TTTCAACCTGAAATTGCTTCAATGAAAGAAGAGCAGACAAAGATTGAAAAAACTAGCTTT
AGTGAGCTTATGAAAGTCAAGTGTGTGAAAAAAGCTTTAATAATCATCATGTTTCAGTTC
TTTTGTTTCCAATTGAGCGGAGCTAACGCAGTAACTTTTTATGCACAACAGATTTTCAAT
GATGCTGCTATGAATATAGAATCGAGTATAGCAGCTATAATAGTAACGACTTTTCAATTC
ATCACTTCAGTAATTGCAGTCCGATACATTAATCTTTATGGACGTAAAAAGATGATTTGT
ACATTCAACTTATTTTTGGTTTTATCATTAATGTCATTGGGCATTTATTTCATACTGAAA
GACAATAATTATTTCTTAATAAGGAGTTTAAGTTGGCTGCCATTGTTATCAATGTGCGTT
TATCTCGTTACATTTTGTCTTGGAATGGGTCCCGTCACTTACATATGGCTCGGTGAGCTC
TTCATACAAAATAATGCGAAAAAAACGATCGCACCTCTGGGACAGATGATAAATCATACG
CTTACATTTCTTATCGGACTATTCTTTCCACTCTTGACTAATCTAATTGGCAGTGGATTT
ATCTTTTTTTCCTTTGCCGTCGTAACTGTGATTGACATTATTTTCATTATTCTTTTCGTT
CCTGAAACAAATGGGAAAACTTCTGAAGAAATTCAAAATGCATTGTCAAGATGA

>g11244.t2 Gene=g11244 Length=437
MWSLVRTTIVVSLVWSSIIGVQIVENEKYKFWITKTQFGIVVSALSFGAACSCIISGVVR
HSFGTRFTIFIFSSFATIGSILITVPQNLLMLIVGRFLLGLAIGSYSFVIPIYIGEISSS
ELRGIMLSYFQIMLNLGILLAYILGYFVNVNNFNIVCGSIPLFYSIAFLALPESPVFLVS
KGKYDKTHLTMQLLRGREQNFQPEIASMKEEQTKIEKTSFSELMKVKCVKKALIIIMFQF
FCFQLSGANAVTFYAQQIFNDAAMNIESSIAAIIVTTFQFITSVIAVRYINLYGRKKMIC
TFNLFLVLSLMSLGIYFILKDNNYFLIRSLSWLPLLSMCVYLVTFCLGMGPVTYIWLGEL
FIQNNAKKTIAPLGQMINHTLTFLIGLFFPLLTNLIGSGFIFFSFAVVTVIDIIFIILFV
PETNGKTSEEIQNALSR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g11244.t2 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 5 436 8.6E-88
2 g11244.t2 PANTHER PTHR48021:SF63 GH07001P-RELATED 11 434 5.5E-99
3 g11244.t2 PANTHER PTHR48021 - 11 434 5.5E-99
6 g11244.t2 PRINTS PR00171 Sugar transporter signature 93 112 2.6E-11
4 g11244.t2 PRINTS PR00171 Sugar transporter signature 243 253 2.6E-11
5 g11244.t2 PRINTS PR00171 Sugar transporter signature 335 356 2.6E-11
1 g11244.t2 Pfam PF00083 Sugar (and other) transporter 34 434 2.4E-71
21 g11244.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 20 -
22 g11244.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
23 g11244.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
35 g11244.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 20 -
17 g11244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 21 35 -
32 g11244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 36 55 -
9 g11244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 56 66 -
29 g11244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 67 85 -
19 g11244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 86 90 -
31 g11244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 91 114 -
14 g11244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 115 125 -
33 g11244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 126 147 -
18 g11244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 148 152 -
24 g11244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 153 171 -
10 g11244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 172 231 -
28 g11244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 232 256 -
20 g11244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 257 267 -
25 g11244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 268 287 -
12 g11244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 288 298 -
34 g11244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 299 319 -
15 g11244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 320 330 -
27 g11244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 331 357 -
13 g11244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 358 368 -
26 g11244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 369 389 -
16 g11244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 390 394 -
30 g11244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 395 420 -
11 g11244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 421 437 -
47 g11244.t2 ProSitePatterns PS00217 Sugar transport proteins signature 2. 98 123 -
48 g11244.t2 ProSiteProfiles PS50850 Major facilitator superfamily (MFS) profile. 1 424 26.712
7 g11244.t2 SUPERFAMILY SSF103473 MFS general substrate transporter 18 432 1.18E-42
37 g11244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 24 -
42 g11244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 37 59 -
45 g11244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 63 85 -
39 g11244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 92 114 -
43 g11244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 129 148 -
38 g11244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 233 255 -
41 g11244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 270 292 -
46 g11244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 299 319 -
36 g11244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 334 356 -
44 g11244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 369 391 -
40 g11244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 396 418 -

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 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