Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g12286 g12286.t19 isoform g12286.t19 22154783 22155164
chr_1 g12286 g12286.t19 exon g12286.t19.exon1 22154783 22154794
chr_1 g12286 g12286.t19 cds g12286.t19.CDS1 22154785 22154794
chr_1 g12286 g12286.t19 exon g12286.t19.exon2 22154857 22155164
chr_1 g12286 g12286.t19 cds g12286.t19.CDS2 22154857 22155164
chr_1 g12286 g12286.t19 TSS g12286.t19 NA NA
chr_1 g12286 g12286.t19 TTS g12286.t19 NA NA

Sequences

>g12286.t19 Gene=g12286 Length=320
ATGAGCACGAATCATAACGCAAATCATGATCAGCAGCCGCTAGCGAGAGAAAAAGAACGT
CGGAGTGTACTTGGCGAGAACCTTTTGACTATTGTGACGATAATTGGTGTTGTTGGAGGA
ACAATATTTGGACTTATTTTAAAAAAATCCGACCAAAAATGGACACAGCGTGACATTATG
TACATTCAATATCCTGGTGATTTATTCTTAAGGATGCTTAAATGTCTTATTGTGCCATTG
CTTGTATCGTCAATCACGAGTGCAATAGGTGCTCTAGATTTAAGTTTATCTAAACGAATT
GCGTTGAGATCTATAATTTA

>g12286.t19 Gene=g12286 Length=106
MSTNHNANHDQQPLAREKERRSVLGENLLTIVTIIGVVGGTIFGLILKKSDQKWTQRDIM
YIQYPGDLFLRMLKCLIVPLLVSSITSAIGALDLSLSKRIALRSII

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g12286.t19 Gene3D G3DSA:1.10.3860.10 Proton glutamate symport protein 21 106 1.1E-16
2 g12286.t19 PANTHER PTHR11958:SF63 AMINO ACID TRANSPORTER 15 105 4.1E-23
3 g12286.t19 PANTHER PTHR11958 SODIUM/DICARBOXYLATE SYMPORTER-RELATED 15 105 4.1E-23
5 g12286.t19 PRINTS PR00173 Glutamate-aspartate symporter signature 27 47 1.4E-13
4 g12286.t19 PRINTS PR00173 Glutamate-aspartate symporter signature 72 92 1.4E-13
1 g12286.t19 Pfam PF00375 Sodium:dicarboxylate symporter family 29 105 5.0E-14
12 g12286.t19 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 27 -
14 g12286.t19 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 28 47 -
10 g12286.t19 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 48 67 -
13 g12286.t19 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 68 92 -
11 g12286.t19 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 93 106 -
8 g12286.t19 SUPERFAMILY SSF118215 Proton glutamate symport protein 29 105 4.18E-12
7 g12286.t19 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 28 47 -
6 g12286.t19 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 68 90 -

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:0016021 integral component of membrane CC
GO:0015293 symporter 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