Gene loci information

Transcript annotation

  • This transcript has been annotated as Thiamine transporter 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 g10216 g10216.t4 TSS g10216.t4 8268233 8268233
chr_1 g10216 g10216.t4 isoform g10216.t4 8268356 8269859
chr_1 g10216 g10216.t4 exon g10216.t4.exon1 8268356 8268567
chr_1 g10216 g10216.t4 cds g10216.t4.CDS1 8268356 8268567
chr_1 g10216 g10216.t4 exon g10216.t4.exon2 8268630 8268770
chr_1 g10216 g10216.t4 cds g10216.t4.CDS2 8268630 8268770
chr_1 g10216 g10216.t4 exon g10216.t4.exon3 8268825 8268985
chr_1 g10216 g10216.t4 cds g10216.t4.CDS3 8268825 8268985
chr_1 g10216 g10216.t4 exon g10216.t4.exon4 8269051 8269641
chr_1 g10216 g10216.t4 cds g10216.t4.CDS4 8269051 8269641
chr_1 g10216 g10216.t4 exon g10216.t4.exon5 8269716 8269859
chr_1 g10216 g10216.t4 cds g10216.t4.CDS5 8269716 8269813
chr_1 g10216 g10216.t4 TTS g10216.t4 8269917 8269917

Sequences

>g10216.t4 Gene=g10216 Length=1249
ATGCAGCAGTGGCTAAAAATTTCTCTAGCTCTTTGTTCTTTTGGATTCTTCAGAGAGTTT
AGACCTTCAGAGCCATTTGTTACTAATTTTTTAACATCAACTAAATGGAGAAATTTAACT
GAAGATCAAATAAATTTTGAAGTTTATCCAGTCGGCACATATTCGACACTTACACTACTT
GTTTTCGTATTTTTAGTGACTGATATATTAAGATATAAACCAATTATCATCGCTTCATCA
TGTGCAGGTATAATTATTTGGTCGATTCTACTCTGGACTACATCATTACTTGCATTACAA
ATTTCACAATTCTTTTATGGGTTCTATATGGCAGCTGAAGTTGCATATTATACTTACATG
TATGCTAAAGTAGAAAAAAGTAAATATCAAAAAGTTACGGGAAACGCTCGCGCTGCTATA
TTGACTGGACGTTTTACATCAAGTGTAATTGCTCAACTTTTATATTCATTCGATATTATG
GATTTTAGAGAATTAAATTATTTAACACTTGGAGCTCAATCCATATCATTGATTATTGCT
ATCTTTTTACCATCTGTTGGCATAAGCCTATATTTTTATAAAGTTCCTAATGAAGAACAA
AATGATTCAACAATAACTGATAGATCTTCATCAAGTACTAATGTAAAACCAAGATTTTCT
TATAATAGAGCTGGAACTCTTTTATGGAAGCATTTTCTTGAAGCTTACTCGAATCCAATA
GTAATTCAATATAGTTTTTGGTGGGCACTTGCTATGGCAGGATTTTTCATGGTACAATTT
TATGTACAATTTCTTTGGTTACTCATTGAAGATCGAGAAGTTTATAATGCAGGTGTTGAA
GCAGTTTTGACATTATTTGGTGCATTGACTGCTTTTTTTGCTGGTTATTTAACGAGTAGG
ACATTCAAAAAATATGATCTTTGGATTCTGGCAATATGTTCATTCTTGCAAGGAGCAATG
GTACTGGTGTCTTCACAATCAAACAATATTTGGGTCATGTACTCAATGTATGTTTTGTTT
GGCACCTTCTTTAGTTTTATGATAACGATTGCTACTGCTTTTGTTGCTCAACAACTTGCA
GACGATAGTTTTGCATTAATTTTTGACTCGAATACAATTTTTTATTTTTGGCTGTTACTT
TATAGTATTAGCTGCAATCTACTTGATTACTGCAATAATAAAAGCAGTATTTTGGGGAAA
TGATGCGTCGAATACATATCAGATTAATAATGATATAAAGGAAAATTAG

>g10216.t4 Gene=g10216 Length=400
MQQWLKISLALCSFGFFREFRPSEPFVTNFLTSTKWRNLTEDQINFEVYPVGTYSTLTLL
VFVFLVTDILRYKPIIIASSCAGIIIWSILLWTTSLLALQISQFFYGFYMAAEVAYYTYM
YAKVEKSKYQKVTGNARAAILTGRFTSSVIAQLLYSFDIMDFRELNYLTLGAQSISLIIA
IFLPSVGISLYFYKVPNEEQNDSTITDRSSSSTNVKPRFSYNRAGTLLWKHFLEAYSNPI
VIQYSFWWALAMAGFFMVQFYVQFLWLLIEDREVYNAGVEAVLTLFGALTAFFAGYLTSR
TFKKYDLWILAICSFLQGAMVLVSSQSNNIWVMYSMYVLFGTFFSFMITIATAFVAQQLA
DDSFALIFDSNTIFYFWLLLYSISCNLLDYCNNKSSILGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g10216.t4 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 25 386 3.2E-17
2 g10216.t4 PANTHER PTHR10686:SF36 AGAP006349-PA 1 374 1.6E-146
3 g10216.t4 PANTHER PTHR10686 FOLATE TRANSPORTER 1 374 1.6E-146
31 g10216.t4 PIRSF PIRSF028739 Folate/thiamine_transporter 1 383 2.2E-122
1 g10216.t4 Pfam PF01770 Reduced folate carrier 2 375 2.6E-129
17 g10216.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 22 -
18 g10216.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 6 -
19 g10216.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 7 17 -
30 g10216.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 18 22 -
13 g10216.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 23 45 -
24 g10216.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 46 66 -
10 g10216.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 67 74 -
25 g10216.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 75 98 -
12 g10216.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 99 103 -
26 g10216.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 104 122 -
7 g10216.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 123 133 -
20 g10216.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 134 155 -
14 g10216.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 156 174 -
27 g10216.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 175 193 -
9 g10216.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 194 245 -
21 g10216.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 246 269 -
16 g10216.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 270 280 -
22 g10216.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 281 298 -
8 g10216.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 299 304 -
23 g10216.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 305 325 -
15 g10216.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 326 330 -
29 g10216.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 331 356 -
6 g10216.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 357 362 -
28 g10216.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 363 383 -
11 g10216.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 384 400 -
4 g10216.t4 SUPERFAMILY SSF103473 MFS general substrate transporter 52 367 1.44E-19
42 g10216.t4 TIGRFAM TIGR00806 rfc: reduced folate carrier 1 375 5.1E-85
35 g10216.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 44 66 -
34 g10216.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 76 98 -
38 g10216.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 105 122 -
39 g10216.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 135 157 -
40 g10216.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 170 192 -
36 g10216.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 246 268 -
33 g10216.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 275 297 -
41 g10216.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 307 324 -
32 g10216.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 337 356 -
37 g10216.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 366 388 -

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:0090482 vitamin transmembrane transporter activity MF
GO:0051180 vitamin transport BP
GO:0016021 integral component of membrane CC

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