Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Solute carrier family 46 member 3.

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_2 g7244 g7244.t2 TSS g7244.t2 22335882 22335882
chr_2 g7244 g7244.t2 isoform g7244.t2 22336359 22337597
chr_2 g7244 g7244.t2 exon g7244.t2.exon1 22336359 22337597
chr_2 g7244 g7244.t2 cds g7244.t2.CDS1 22336359 22337597
chr_2 g7244 g7244.t2 TTS g7244.t2 22337665 22337665

Sequences

>g7244.t2 Gene=g7244 Length=1239
ATGACAATTTGCACACATCTCAACACAGATAATTATACAAAAACAATAGAAGAAGAAATT
CAACCTCAAGTGGCAAAAATCAATATGTCGATTCTTCTACTGAACTCAATTTTTCCAGCA
CTTTTTAGTTTAATTTTGGGCTCATGGTCTGACATATTTGGACGAAAAAAAATTTTAATG
CTGGCATTTACTGGTTATACTTGCACAATAGGATTAATTACATTGTTTTCATATATTTCT
GACAATATCAATCCTCTGACACCTTGGGTGTATTTTTTCGCAGAAATGCCAATGACTTTT
ATGGGTGGATGGACATGTTTAGACGTTTCAGTTTGTTGTTATGCAGCGGATTTAAGTTCT
CAACAAAATCGTTCAATTCGACTTGGAACAATTACATTTCTAAATTTCTTTGCAAGTGCT
ATTGCATATTTTTGCAGTTCATATATTTTAAATGCTACCAACATTACATTTGTATTTATA
ATAGCGATATCATGTGCAGCAGCAGCATTTTTATGGTCCATTTTTATAATTGATGAGACA
ATTGAGCCACCGATTGAAGTTTCAAAGTTTGATCAAATTAAAGAAATTTTCTCTACAAGT
CGCATACATGAAATTTTTACTACATTATGCAAAAGACGTCCACAAAAATGTAGGAAAACT
CTATGGTCTTTGATGACTGTTCCAATTTTAGTAGTCTTTACAATGCATGGAAATGGTACG
CTTAATTATTTATTTGTTCGAGAAAAATTTGCATGGTCTTTGAGAGAATGGACAATATTT
GAGAGCACAAATACAATCATTTCTGTGTCCGGTCTTTTTATTGGTTTGTTGTTGTTGAAA
AAAACATTCAAATTCTCTGATATCACTCTTGGCATTGTTGCTCTCACTTCACTACTCGTC
GATGCACTCATGAAAGCATTTGCTCAAAAATCATATCTACTTTATTTGTCATCAGGAATC
ACACCCTTCCGACTTTTAGCTACACCTATGTTTAGATCTGTAATGTCTGTAATAGTTCCA
CATCAGGAAATAGGGAAAATTTATAGCTTGACAACGTGTTTTGAAGCATTAAGCGGTTTG
GGAGCCGGTCCTTTATATACTGTGATTTATAACAATACGTTTACTGTATTTCCTGGAGCA
TATCATCTTTTGAGTGCTTGCATATTTTTCTTCAATCTGATATTATGTGCTTTTATATTC
CGATGGAAATCTCAAGTTGTTTCATATCAATATGAATAA

>g7244.t2 Gene=g7244 Length=412
MTICTHLNTDNYTKTIEEEIQPQVAKINMSILLLNSIFPALFSLILGSWSDIFGRKKILM
LAFTGYTCTIGLITLFSYISDNINPLTPWVYFFAEMPMTFMGGWTCLDVSVCCYAADLSS
QQNRSIRLGTITFLNFFASAIAYFCSSYILNATNITFVFIIAISCAAAAFLWSIFIIDET
IEPPIEVSKFDQIKEIFSTSRIHEIFTTLCKRRPQKCRKTLWSLMTVPILVVFTMHGNGT
LNYLFVREKFAWSLREWTIFESTNTIISVSGLFIGLLLLKKTFKFSDITLGIVALTSLLV
DALMKAFAQKSYLLYLSSGITPFRLLATPMFRSVMSVIVPHQEIGKIYSLTTCFEALSGL
GAGPLYTVIYNNTFTVFPGAYHLLSACIFFFNLILCAFIFRWKSQVVSYQYE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g7244.t2 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 21 401 2.6E-24
2 g7244.t2 PANTHER PTHR23507 ZGC:174356 3 403 1.4E-67
3 g7244.t2 PANTHER PTHR23507:SF1 ZGC:174356 3 403 1.4E-67
1 g7244.t2 Pfam PF07690 Major Facilitator Superfamily 26 360 3.9E-22
23 g7244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 26 -
31 g7244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 27 46 -
15 g7244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 47 57 -
33 g7244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 58 79 -
21 g7244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 80 90 -
32 g7244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 91 116 -
19 g7244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 117 127 -
34 g7244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 128 149 -
24 g7244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 150 154 -
35 g7244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 155 177 -
14 g7244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 178 220 -
30 g7244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 221 245 -
20 g7244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 246 256 -
29 g7244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 257 279 -
17 g7244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 280 287 -
36 g7244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 288 308 -
22 g7244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 309 313 -
26 g7244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 314 335 -
16 g7244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 336 346 -
28 g7244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 347 369 -
25 g7244.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 370 380 -
27 g7244.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 381 400 -
18 g7244.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 401 412 -
12 g7244.t2 SUPERFAMILY SSF103473 MFS general substrate transporter 31 403 2.49E-26
7 g7244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 31 53 -
5 g7244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 58 80 -
8 g7244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 128 150 -
10 g7244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 155 177 -
11 g7244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 220 237 -
4 g7244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 257 279 -
6 g7244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 348 370 -
9 g7244.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 380 402 -

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: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.

Raw TPM values