Gene loci information

Transcript annotation

  • This transcript has been annotated as 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 g12614 g12614.t7 TSS g12614.t7 24791362 24791362
chr_1 g12614 g12614.t7 isoform g12614.t7 24791403 24793181
chr_1 g12614 g12614.t7 exon g12614.t7.exon1 24791403 24791833
chr_1 g12614 g12614.t7 cds g12614.t7.CDS1 24791403 24791833
chr_1 g12614 g12614.t7 exon g12614.t7.exon2 24791962 24792569
chr_1 g12614 g12614.t7 cds g12614.t7.CDS2 24791962 24792569
chr_1 g12614 g12614.t7 exon g12614.t7.exon3 24792630 24792717
chr_1 g12614 g12614.t7 cds g12614.t7.CDS3 24792630 24792717
chr_1 g12614 g12614.t7 exon g12614.t7.exon4 24792781 24793181
chr_1 g12614 g12614.t7 cds g12614.t7.CDS4 24792781 24792919
chr_1 g12614 g12614.t7 TTS g12614.t7 24793269 24793269

Sequences

>g12614.t7 Gene=g12614 Length=1528
ATGAATCGCGCAAGATTTTACAAAGCAATAAAACCACATTTGCTTACAATTTTGACTGTT
CTCGCTGTGATTTTCAGTATTGTTCTTGGAATAATTTTAAGAGTAAATCATGATAAATAT
TCAGCAAGGACTGTGATGTATGTCAATTTTTTGGGCGATCTCTTTCTTCGTATGATCAGA
GCTCTCATTTTGCCTTTGATTATTTCATCCCTTATTAGCGCGATTGCGCCACTTGATTTT
TTATTAAGCAAGAAAATAGGTCTAAGAGCAATAGTTTATATTCTTGTAACAACTATCATT
GCTGTCATTCTTGGAATTGTTCTTGTGGTAACTATAAAACCGGGTGGAGCTGGTCTAGAA
GATAATGAAGAAGGAATTGTTTCTAATAGAAAATCATCAACGATTGTTGACACTTTGCTT
GATTTAATAAGAAACATTTTTCCACCGAATATTGTTCAAGCGACACTACAAACTTATCAA
ACGACCTTAACACCACCAGAAGACAATCCTGATGCGGACATTAATGATTGGATAATTAGC
TCTCATTATGTAGATGGAACAAATATGCTTGGTGTGGTGGCAGTGTCAATCATTTTTGGC
ATAACAATGAGTTTGGTACGAGAAAAAGTCAAAGGTTTAATCGATGTCACACTTGAATTT
ACATTAATTATGATGAAAATTATTCAATTTGTAATTTGGTTGACTCCAATTGGTGTCTTT
TTCTTGATTCTTGCGAAATTCTTAGAAATGGATGATATTCTTGATGTTTTTGCTAAATTG
GGACTTTATTTAGCCACAGTATCACTTGGAATTTTCGTTCATGGTTTCATTTTCTTACCA
GCAATATATTTTGCATTTACAAAGAAAAATCCATTAAGATTTATTGCGCATATGGGACCA
GCAATTTTGACAGCTCTTGGTACATCGTCTTCACTTGCTACATTGCCAGTATCATTGAAA
TGTGTTGAAGAAAAGGCAAAAATTGATGTGAGAGTTTCACGATTTATGCTGCCACTTGGA
GCAACAATTAATATGAATGGCACTGCTCTTTATGAGGCTGTTGCCGCAATTTTCATAGCA
CAACTGCGACAAATTGACTTATCAATTGGATCAATTATTGCCGTGTGTATCACTGCTACA
TGCGCTTCAATTGGGACAGCCGGTGTGCCTCAAGCTGGCTTAGTAACGCTTGTAATGGTT
CTTGATTCAATTGGAATTCCTGCTGAAGATATCAGTTTAATTATTGCTATAGATTGGATT
GTGTAAGTTTTAAAAATTTATTGTAAATTTCATTTCTAAATTTTTATAATTTCAATTGAT
AAATCTTATGAAATTTTTAAATAGGAACCGAATTAGAGCATGTGTTAACATTCTTGGTGA
TGCTTATGGAGCAGCAATTATAGAAGCAATAAGCAAAAAAGAATTGGATAAACTTCCAAT
AGAAGCACCAAATGACGTTGAAACAGCAAAAGAAGAAACAACAAATCTTAATGGGAATGC
AACTGATGTAAGATTAAAGGAAGTTTAA

>g12614.t7 Gene=g12614 Length=421
MNRARFYKAIKPHLLTILTVLAVIFSIVLGIILRVNHDKYSARTVMYVNFLGDLFLRMIR
ALILPLIISSLISAIAPLDFLLSKKIGLRAIVYILVTTIIAVILGIVLVVTIKPGGAGLE
DNEEGIVSNRKSSTIVDTLLDLIRNIFPPNIVQATLQTYQTTLTPPEDNPDADINDWIIS
SHYVDGTNMLGVVAVSIIFGITMSLVREKVKGLIDVTLEFTLIMMKIIQFVIWLTPIGVF
FLILAKFLEMDDILDVFAKLGLYLATVSLGIFVHGFIFLPAIYFAFTKKNPLRFIAHMGP
AILTALGTSSSLATLPVSLKCVEEKAKIDVRVSRFMLPLGATINMNGTALYEAVAAIFIA
QLRQIDLSIGSIIAVCITATCASIGTAGVPQAGLVTLVMVLDSIGIPAEDISLIIAIDWI
V

Protein features from InterProScan

Transcript Database ID Name Start End E.value
22 g12614.t7 Gene3D G3DSA:1.10.3860.10 Proton glutamate symport protein 6 421 7.9E-114
2 g12614.t7 PANTHER PTHR11958 SODIUM/DICARBOXYLATE SYMPORTER-RELATED 3 421 1.2E-147
7 g12614.t7 PRINTS PR00173 Glutamate-aspartate symporter signature 13 33 2.6E-94
8 g12614.t7 PRINTS PR00173 Glutamate-aspartate symporter signature 58 78 2.6E-94
6 g12614.t7 PRINTS PR00173 Glutamate-aspartate symporter signature 87 112 2.6E-94
3 g12614.t7 PRINTS PR00173 Glutamate-aspartate symporter signature 184 206 2.6E-94
11 g12614.t7 PRINTS PR00173 Glutamate-aspartate symporter signature 231 250 2.6E-94
4 g12614.t7 PRINTS PR00173 Glutamate-aspartate symporter signature 268 287 2.6E-94
5 g12614.t7 PRINTS PR00173 Glutamate-aspartate symporter signature 335 361 2.6E-94
10 g12614.t7 PRINTS PR00173 Glutamate-aspartate symporter signature 370 389 2.6E-94
9 g12614.t7 PRINTS PR00173 Glutamate-aspartate symporter signature 397 417 2.6E-94
1 g12614.t7 Pfam PF00375 Sodium:dicarboxylate symporter family 15 421 2.2E-112
23 g12614.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
37 g12614.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 35 -
29 g12614.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 36 54 -
41 g12614.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 55 78 -
27 g12614.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 79 89 -
35 g12614.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 90 112 -
30 g12614.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 113 188 -
33 g12614.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 189 206 -
24 g12614.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 207 226 -
38 g12614.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 227 248 -
28 g12614.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 249 259 -
39 g12614.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 260 286 -
26 g12614.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 287 297 -
36 g12614.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 298 319 -
32 g12614.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 320 338 -
40 g12614.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 339 360 -
25 g12614.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 361 366 -
34 g12614.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 367 389 -
31 g12614.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 390 421 -
21 g12614.t7 SUPERFAMILY SSF118215 Proton glutamate symport protein 15 420 4.05E-94
17 g12614.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
19 g12614.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 61 83 -
16 g12614.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 90 112 -
12 g12614.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 189 206 -
13 g12614.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 227 249 -
18 g12614.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 264 286 -
20 g12614.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 293 315 -
15 g12614.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 338 360 -
14 g12614.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 367 389 -

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