Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Excitatory amino acid transporter 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_1 g13851 g13851.t8 isoform g13851.t8 32839281 32840121
chr_1 g13851 g13851.t8 exon g13851.t8.exon1 32839281 32839873
chr_1 g13851 g13851.t8 cds g13851.t8.CDS1 32839281 32839577
chr_1 g13851 g13851.t8 exon g13851.t8.exon2 32839935 32840121
chr_1 g13851 g13851.t8 TTS g13851.t8 32840304 32840304
chr_1 g13851 g13851.t8 TSS g13851.t8 NA NA

Sequences

>g13851.t8 Gene=g13851 Length=780
ATGGAAATGGAAAATATTTTGGATGTTTTTGCTAAATTAGGACTTTACTTTGTAACAGTC
GCTGGTGGCATCATTTTCCATGGTTTTGTCATTTTACCAGCAATTTATTTCTTCCTTACT
AAAAAAAATCCTGTTAAATTTGTTGGCAATATGGCACAAGCGATTGCTACTGCTTTCGGA
ACATCAAGTTCTTCAGCTACTCTTCCTGTTACAATGGAGTGCCTTGAACATAACAATAAA
GTTGATGGAAGAGTAACACGATTTGTTTTGCCTATTGGTGCTACGATCAATATGTAAGTT
TAATTTGTATTAACATTTGCATCTTTTACAAATATATTTATGTTTAATCCATTCCGTTAA
ATTAGGGATGGTACTGCCTTATATGAAGCTGTTGCTGCCCTTTTTATCGCACAATTAAGA
AAAGTTCCTTTGAGCTTCACACAAATTGTTGCTGTAAGCATCACATCGACAGCAGCGTCA
ATTGGCGCGGCGGGAATTCCTCAAGCTGGCTTGGTGACACTTGTAATGGTGCTTGATACA
GTCGGTTTGCCTGCTGAAGATGTTACATATATTATTGCTATTGATTGGATAATTGATAGA
ATAAGAACTGTAGTAAATGTTCTTGGTGACTCATTTGGTGCAGCAATTGTTGAACATTAT
AGCAAGAAAGATCTTGAAAGATCAATGGAAACTCCTCCTCGAGTAAATGGAAACATGATA
GTGCCAATTGATGCCTATAAAGGAAATGATAACTCGACTTTTGTCGATGAACGCATGTAA

>g13851.t8 Gene=g13851 Length=98
MEMENILDVFAKLGLYFVTVAGGIIFHGFVILPAIYFFLTKKNPVKFVGNMAQAIATAFG
TSSSSATLPVTMECLEHNNKVDGRVTRFVLPIGATINM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g13851.t8 Gene3D G3DSA:1.10.3860.10 Proton glutamate symport protein 2 98 4.9E-34
2 g13851.t8 PANTHER PTHR11958 SODIUM/DICARBOXYLATE SYMPORTER-RELATED 1 98 2.8E-42
4 g13851.t8 PRINTS PR00173 Glutamate-aspartate symporter signature 21 40 4.1E-11
3 g13851.t8 PRINTS PR00173 Glutamate-aspartate symporter signature 88 98 4.1E-11
1 g13851.t8 Pfam PF00375 Sodium:dicarboxylate symporter family 5 98 9.2E-34
9 g13851.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 14 -
10 g13851.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 15 39 -
8 g13851.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 40 98 -
6 g13851.t8 SUPERFAMILY SSF118215 Proton glutamate symport protein 7 98 8.5E-29
5 g13851.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 15 37 -

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