General information for g12614.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Excitatory amino acid transporter 3.
Parent gene
- The parent gene g12614 is located on chr_1: 24792228..24793181 (+ strand)
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.t1 | TSS | g12614.t1 | 24791362 | 24791362 |
| chr_1 | g12614 | g12614.t1 | isoform | g12614.t1 | 24791403 | 24793181 |
| chr_1 | g12614 | g12614.t1 | exon | g12614.t1.exon1 | 24791403 | 24791833 |
| chr_1 | g12614 | g12614.t1 | cds | g12614.t1.CDS1 | 24791403 | 24791833 |
| chr_1 | g12614 | g12614.t1 | exon | g12614.t1.exon2 | 24791962 | 24792569 |
| chr_1 | g12614 | g12614.t1 | cds | g12614.t1.CDS2 | 24791962 | 24792569 |
| chr_1 | g12614 | g12614.t1 | exon | g12614.t1.exon3 | 24792630 | 24792717 |
| chr_1 | g12614 | g12614.t1 | cds | g12614.t1.CDS3 | 24792630 | 24792717 |
| chr_1 | g12614 | g12614.t1 | exon | g12614.t1.exon4 | 24792781 | 24792915 |
| chr_1 | g12614 | g12614.t1 | cds | g12614.t1.CDS4 | 24792781 | 24792915 |
| chr_1 | g12614 | g12614.t1 | exon | g12614.t1.exon5 | 24792998 | 24793181 |
| chr_1 | g12614 | g12614.t1 | cds | g12614.t1.CDS5 | 24792998 | 24793181 |
| chr_1 | g12614 | g12614.t1 | TTS | g12614.t1 | 24793269 | 24793269 |
Sequences
>g12614.t1 Gene=g12614 Length=1446
ATGAATCGCGCAAGATTTTACAAAGCAATAAAACCACATTTGCTTACAATTTTGACTGTT
CTCGCTGTGATTTTCAGTATTGTTCTTGGAATAATTTTAAGAGTAAATCATGATAAATAT
TCAGCAAGGACTGTGATGTATGTCAATTTTTTGGGCGATCTCTTTCTTCGTATGATCAGA
GCTCTCATTTTGCCTTTGATTATTTCATCCCTTATTAGCGCGATTGCGCCACTTGATTTT
TTATTAAGCAAGAAAATAGGTCTAAGAGCAATAGTTTATATTCTTGTAACAACTATCATT
GCTGTCATTCTTGGAATTGTTCTTGTGGTAACTATAAAACCGGGTGGAGCTGGTCTAGAA
GATAATGAAGAAGGAATTGTTTCTAATAGAAAATCATCAACGATTGTTGACACTTTGCTT
GATTTAATAAGAAACATTTTTCCACCGAATATTGTTCAAGCGACACTACAAACTTATCAA
ACGACCTTAACACCACCAGAAGACAATCCTGATGCGGACATTAATGATTGGATAATTAGC
TCTCATTATGTAGATGGAACAAATATGCTTGGTGTGGTGGCAGTGTCAATCATTTTTGGC
ATAACAATGAGTTTGGTACGAGAAAAAGTCAAAGGTTTAATCGATGTCACACTTGAATTT
ACATTAATTATGATGAAAATTATTCAATTTGTAATTTGGTTGACTCCAATTGGTGTCTTT
TTCTTGATTCTTGCGAAATTCTTAGAAATGGATGATATTCTTGATGTTTTTGCTAAATTG
GGACTTTATTTAGCCACAGTATCACTTGGAATTTTCGTTCATGGTTTCATTTTCTTACCA
GCAATATATTTTGCATTTACAAAGAAAAATCCATTAAGATTTATTGCGCATATGGGACCA
GCAATTTTGACAGCTCTTGGTACATCGTCTTCACTTGCTACATTGCCAGTATCATTGAAA
TGTGTTGAAGAAAAGGCAAAAATTGATGTGAGAGTTTCACGATTTATGCTGCCACTTGGA
GCAACAATTAATATGAATGGCACTGCTCTTTATGAGGCTGTTGCCGCAATTTTCATAGCA
CAACTGCGACAAATTGACTTATCAATTGGATCAATTATTGCCGTGTGTATCACTGCTACA
TGCGCTTCAATTGGGACAGCCGGTGTGCCTCAAGCTGGCTTAGTAACGCTTGTAATGGTT
CTTGATTCAATTGGAATTCCTGCTGAAGATATCAGTTTAATTATTGCTATAGATTGGATT
GTGAACCGAATTAGAGCATGTGTTAACATTCTTGGTGATGCTTATGGAGCAGCAATTATA
GAAGCAATAAGCAAAAAAGAATTGGATAAACTTCCAATAGAAGCACCAAATGACGTTGAA
ACAGCAAAAGAAGAAACAACAAATCTTAATGGGAATGCAACTGATGTAAGATTAAAGGAA
GTTTAA
>g12614.t1 Gene=g12614 Length=481
MNRARFYKAIKPHLLTILTVLAVIFSIVLGIILRVNHDKYSARTVMYVNFLGDLFLRMIR
ALILPLIISSLISAIAPLDFLLSKKIGLRAIVYILVTTIIAVILGIVLVVTIKPGGAGLE
DNEEGIVSNRKSSTIVDTLLDLIRNIFPPNIVQATLQTYQTTLTPPEDNPDADINDWIIS
SHYVDGTNMLGVVAVSIIFGITMSLVREKVKGLIDVTLEFTLIMMKIIQFVIWLTPIGVF
FLILAKFLEMDDILDVFAKLGLYLATVSLGIFVHGFIFLPAIYFAFTKKNPLRFIAHMGP
AILTALGTSSSLATLPVSLKCVEEKAKIDVRVSRFMLPLGATINMNGTALYEAVAAIFIA
QLRQIDLSIGSIIAVCITATCASIGTAGVPQAGLVTLVMVLDSIGIPAEDISLIIAIDWI
VNRIRACVNILGDAYGAAIIEAISKKELDKLPIEAPNDVETAKEETTNLNGNATDVRLKE
V
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 22 | g12614.t1 | Gene3D | G3DSA:1.10.3860.10 | Proton glutamate symport protein | 6 | 448 | 1.1E-122 |
| 2 | g12614.t1 | PANTHER | PTHR11958 | SODIUM/DICARBOXYLATE SYMPORTER-RELATED | 3 | 461 | 1.1E-163 |
| 7 | g12614.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 13 | 33 | 6.4E-94 |
| 8 | g12614.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 58 | 78 | 6.4E-94 |
| 6 | g12614.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 87 | 112 | 6.4E-94 |
| 3 | g12614.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 184 | 206 | 6.4E-94 |
| 11 | g12614.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 231 | 250 | 6.4E-94 |
| 4 | g12614.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 268 | 287 | 6.4E-94 |
| 5 | g12614.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 335 | 361 | 6.4E-94 |
| 10 | g12614.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 370 | 389 | 6.4E-94 |
| 9 | g12614.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 397 | 417 | 6.4E-94 |
| 1 | g12614.t1 | Pfam | PF00375 | Sodium:dicarboxylate symporter family | 15 | 442 | 3.8E-120 |
| 23 | g12614.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 38 | g12614.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 35 | - |
| 30 | g12614.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 36 | 54 | - |
| 42 | g12614.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 55 | 78 | - |
| 28 | g12614.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 79 | 89 | - |
| 36 | g12614.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 90 | 112 | - |
| 31 | g12614.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 113 | 188 | - |
| 34 | g12614.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 189 | 206 | - |
| 24 | g12614.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 207 | 226 | - |
| 39 | g12614.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 227 | 248 | - |
| 29 | g12614.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 249 | 259 | - |
| 40 | g12614.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 260 | 286 | - |
| 27 | g12614.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 287 | 297 | - |
| 37 | g12614.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 298 | 319 | - |
| 33 | g12614.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 320 | 338 | - |
| 41 | g12614.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 339 | 360 | - |
| 26 | g12614.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 361 | 366 | - |
| 43 | g12614.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 367 | 388 | - |
| 32 | g12614.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 389 | 393 | - |
| 35 | g12614.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 394 | 421 | - |
| 25 | g12614.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 422 | 481 | - |
| 21 | g12614.t1 | SUPERFAMILY | SSF118215 | Proton glutamate symport protein | 15 | 441 | 1.27E-100 |
| 17 | g12614.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 19 | g12614.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 61 | 83 | - |
| 16 | g12614.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 90 | 112 | - |
| 12 | g12614.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 189 | 206 | - |
| 13 | g12614.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 227 | 249 | - |
| 18 | g12614.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 264 | 286 | - |
| 20 | g12614.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 293 | 315 | - |
| 15 | g12614.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 338 | 360 | - |
| 14 | g12614.t1 | 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