Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Reduced folate transporter.

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.t6 TSS g10216.t6 8268233 8268233
chr_1 g10216 g10216.t6 isoform g10216.t6 8269051 8269859
chr_1 g10216 g10216.t6 exon g10216.t6.exon1 8269051 8269859
chr_1 g10216 g10216.t6 cds g10216.t6.CDS1 8269290 8269859
chr_1 g10216 g10216.t6 TTS g10216.t6 8269917 8269917

Sequences

>g10216.t6 Gene=g10216 Length=809
CTCAATCCATATCATTGATTATTGCTATCTTTTTACCATCTGTTGGCATAAGCCTATATT
TTTATAAAGTTCCTAATGAAGAACAAAATGATTCAACAATAACTGATAGATCTTCATCAA
GTACTAATGTAAAACCAAGATTTTCTTATAATAGAGCTGGAACTCTTTTATGGAAGCATT
TTCTTGAAGCTTACTCGAATCCAATAGTAATTCAATATAGTTTTTGGTGGGCACTTGCTA
TGGCAGGATTTTTCATGGTACAATTTTATGTACAATTTCTTTGGTTACTCATTGAAGATC
GAGAAGTTTATAATGCAGGTGTTGAAGCAGTTTTGACATTATTTGGTGCATTGACTGCTT
TTTTTGCTGGTTATTTAACGAGTAGGACATTCAAAAAATATGATCTTTGGATTCTGGCAA
TATGTTCATTCTTGCAAGGAGCAATGGTACTGGTGTCTTCACAATCAAACAATATTTGGG
TCATGTACTCAATGTATGTTTTGTTTGGCACCTTCTTTAGTTTTATGATAACGATTGCTA
CTGCTTTTGTTGCTCAACAACTTGCAGACGATAGTTTTGCATTAATTTTTGGTATCAATA
CTTTAATTGCATTAATATTCCAAACTATTCTCACTTTTGTAATTATGACTTGGCTTAATT
TACAGACTCGAATACAATTTTTTATTTTTGGCTGTTACTTTATAGTATTAGCTGCAATCT
ACTTGATTACTGCAATAATAAAAGCAGTATTTTGGGGAAATGATGCGTCGAATACATATC
AGATTAATAATGATATAAAGGAAAATTAG

>g10216.t6 Gene=g10216 Length=189
MAGFFMVQFYVQFLWLLIEDREVYNAGVEAVLTLFGALTAFFAGYLTSRTFKKYDLWILA
ICSFLQGAMVLVSSQSNNIWVMYSMYVLFGTFFSFMITIATAFVAQQLADDSFALIFGIN
TLIALIFQTILTFVIMTWLNLQTRIQFFIFGCYFIVLAAIYLITAIIKAVFWGNDASNTY
QINNDIKEN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g10216.t6 Coils Coil Coil 176 189 -
10 g10216.t6 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 1 178 1.2E-8
2 g10216.t6 PANTHER PTHR10686:SF36 AGAP006349-PA 1 175 7.7E-50
3 g10216.t6 PANTHER PTHR10686 FOLATE TRANSPORTER 1 175 7.7E-50
1 g10216.t6 Pfam PF01770 Reduced folate carrier 1 148 4.9E-42
17 g10216.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 22 -
20 g10216.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 23 44 -
14 g10216.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 45 55 -
22 g10216.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 56 74 -
15 g10216.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 75 79 -
19 g10216.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 80 105 -
13 g10216.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 106 111 -
21 g10216.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 112 139 -
16 g10216.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 140 144 -
18 g10216.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 145 167 -
12 g10216.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 168 189 -
9 g10216.t6 SUPERFAMILY SSF103473 MFS general substrate transporter 4 164 1.44E-9
7 g10216.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 24 46 -
6 g10216.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 56 74 -
4 g10216.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 81 103 -
5 g10216.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 113 135 -
8 g10216.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 148 170 -

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