Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Thiamine transporter 2.

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_4 g16613 g16613.t4 TSS g16613.t4 10230871 10230871
chr_4 g16613 g16613.t4 isoform g16613.t4 10231635 10232479
chr_4 g16613 g16613.t4 exon g16613.t4.exon1 10231635 10232243
chr_4 g16613 g16613.t4 cds g16613.t4.CDS1 10231691 10232243
chr_4 g16613 g16613.t4 exon g16613.t4.exon2 10232322 10232479
chr_4 g16613 g16613.t4 cds g16613.t4.CDS2 10232322 10232479
chr_4 g16613 g16613.t4 TTS g16613.t4 10232508 10232508

Sequences

>g16613.t4 Gene=g16613 Length=767
AAGGTGTTTCATTTATTGTCGCAATATTTTTACCATCAGTTTCGGTTAGTTTGTACATGT
GGAAAATTGATAAAAATGATAATGATTTAGAAAATGAAAATTTTCAAAATAGTCAAAAAG
AAGCTAAACCTAAACTTTCATTTAAAAGAGCTTCAAAATTACTTTGGATTCATTTTAAGG
AATCATATTCAAATAGAACAGTTTTAATTTGGAGTTTATGGTGGGCTGCGAACACTACTG
GTTTTTATTTAATAATCAATTATATTCAATTATTGTGGCAGCAAGTTGATCAAGAAAAAG
AAAATTATTTTAATGGATATGTTGAGTTTCTGATAACAACTTTTGGTTCAATTACAGCCA
CAATTGCTGGTTATTCTTTTAAAAATTCTTTTGCTAAATACGATATGTATCTTCTTACTT
TATGTTCACTGTTACAAGGTGGCTTTACAATCATAGCGGCAAAAACTCAATCAATTTGGG
TTTGTTATGCTATGTATATTTTAACAGGCTCTGTCTATCATTTTATTATCACATTGGTCA
CTGCATTTGTCGCAAAATTTTTATCCGATGATTCTTTTGCTTTAGTTTTTGGAATTAATA
CACTGATAGCTCTTGTTGCTCAAACTATTTTCACGGTAGTTTTTGTTACTGAAACAGCAA
GTTTTTCACTTGATCCACGACAGCAATTCATGGTTTTTGGATTTTATTTTATTGTACTTT
TTGCAATTTTTTTGATTTTTTCTGTAGTGAAATTTTTTAGAAAATAA

>g16613.t4 Gene=g16613 Length=236
MWKIDKNDNDLENENFQNSQKEAKPKLSFKRASKLLWIHFKESYSNRTVLIWSLWWAANT
TGFYLIINYIQLLWQQVDQEKENYFNGYVEFLITTFGSITATIAGYSFKNSFAKYDMYLL
TLCSLLQGGFTIIAAKTQSIWVCYAMYILTGSVYHFIITLVTAFVAKFLSDDSFALVFGI
NTLIALVAQTIFTVVFVTETASFSLDPRQQFMVFGFYFIVLFAIFLIFSVVKFFRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g16613.t4 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 17 231 7.9E-12
2 g16613.t4 PANTHER PTHR10686:SF36 AGAP006349-PA 18 231 3.1E-65
3 g16613.t4 PANTHER PTHR10686 FOLATE TRANSPORTER 18 231 3.1E-65
1 g16613.t4 Pfam PF01770 Reduced folate carrier 8 213 2.8E-57
13 g16613.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 48 -
24 g16613.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 49 67 -
18 g16613.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 68 86 -
20 g16613.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 87 106 -
14 g16613.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 107 117 -
21 g16613.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 118 138 -
17 g16613.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 139 143 -
23 g16613.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 144 166 -
15 g16613.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 167 172 -
22 g16613.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 173 198 -
16 g16613.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 199 209 -
19 g16613.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 210 234 -
12 g16613.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 235 236 -
10 g16613.t4 SUPERFAMILY SSF103473 MFS general substrate transporter 30 228 3.53E-15
4 g16613.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 49 71 -
6 g16613.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 86 108 -
8 g16613.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 115 134 -
9 g16613.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 144 166 -
5 g16613.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 175 197 -
7 g16613.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 212 234 -

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. There were no conditions that were differentially expressed