General information for g13851.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 g13851 is located on chr_1: 32840121..32841530 (+ 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 | g13851 | g13851.t1 | TSS | g13851.t1 | 32837143 | 32837143 |
| chr_1 | g13851 | g13851.t1 | isoform | g13851.t1 | 32838118 | 32840121 |
| chr_1 | g13851 | g13851.t1 | exon | g13851.t1.exon1 | 32838118 | 32838560 |
| chr_1 | g13851 | g13851.t1 | cds | g13851.t1.CDS1 | 32838118 | 32838560 |
| chr_1 | g13851 | g13851.t1 | exon | g13851.t1.exon2 | 32838935 | 32839573 |
| chr_1 | g13851 | g13851.t1 | cds | g13851.t1.CDS2 | 32838935 | 32839573 |
| chr_1 | g13851 | g13851.t1 | exon | g13851.t1.exon3 | 32839646 | 32839873 |
| chr_1 | g13851 | g13851.t1 | cds | g13851.t1.CDS3 | 32839646 | 32839873 |
| chr_1 | g13851 | g13851.t1 | exon | g13851.t1.exon4 | 32839935 | 32840121 |
| chr_1 | g13851 | g13851.t1 | cds | g13851.t1.CDS4 | 32839935 | 32840121 |
| chr_1 | g13851 | g13851.t1 | TTS | g13851.t1 | 32840304 | 32840304 |
Sequences
>g13851.t1 Gene=g13851 Length=1497
ATGAATAATAAGTTTTTGAAAGAGCATTTGCTCACAATTTTAACTGTGAGTTCTGTTGTG
CTTGGAGTAATTGTTGGTATCATAGTGAGAGCTTCAGTATTAGATGGAGATGATGACAAA
TTTAAAGCTCGTACAATTATGTACGTCAATTTCCTTGGAGATTTATTTCTGAGAATGCTA
AAATCCTTAATTCTACCACTCATCATTTCATCACTAATAGCAGCAGTTGGAAGTCTCGAT
ATCTCACTTTCAAAAACAATTGGACTTCGTGCAATTGCATATTATTTATTAACAACAGTA
TTTGCTGTCATTTTGGGCATTATTTTAGTAATGACAATTCGTCCAGGAGTAGATAGATCA
GAAAATTCAAATGAAAACACTACGACGCCAGCAGCAGTTCAACGAGCAATTACAACACCT
GATACTATGTTAGATTTAGTTCGAAACATCTTTCCACCAAATTTAGTACAAGCATGTATG
CAACAGTATCAGACAGTTCTTACTCCAAACAAAATACAAAATATGAGTGATCCAACAAAT
AGTTCAAATTATGTTCTTGGAACTGACTTGGATGAATTTATTATATCTGGAAAGTATGTG
GATTCTATGAATGTTATGGGCATTGTCGTAGCTTCGATTGTGTTTGGGATTGCAATTGCT
TCAACACGTGAACACTCGAGAAATCTTTTGTCAGTTTGTAATGAATTAAGTCATGTTATG
ATGAAAGTGACACGTTGGGTAATTTGGTTATCTCCAATTGGTGTATTCTTCTTAGTTCTC
TCAAAGCTAATGGAAATGGAAAATATTTTGGATGTTTTTGCTAAATTAGGACTTTACTTT
GTAACAGTCGCTGGTGGCATCATTTTCCATGGTTTTGTCATTTTACCAGCAATTTATTTC
TTCCTTACTAAAAAAAATCCTGTTAAATTTGTTGGCAATATGGCACAAGCGATTGCTACT
GCTTTCGGAACATCAAGTTCTTCAGCTACTCTTCCTGTTACAATGGAGTGCCTTGAACAT
AACAATAAAGTTGATGGAAGAGTAACACGATTTGTTTTGCCTATTGGTGCTACGATCAAT
ATGGATGGTACTGCCTTATATGAAGCTGTTGCTGCCCTTTTTATCGCACAATTAAGAAAA
GTTCCTTTGAGCTTCACACAAATTGTTGCTGTAAGCATCACATCGACAGCAGCGTCAATT
GGCGCGGCGGGAATTCCTCAAGCTGGCTTGGTGACACTTGTAATGGTGCTTGATACAGTC
GGTTTGCCTGCTGAAGATGTTACATATATTATTGCTATTGATTGGATAATTGATAGAATA
AGAACTGTAGTAAATGTTCTTGGTGACTCATTTGGTGCAGCAATTGTTGAACATTATAGC
AAGAAAGATCTTGAAAGATCAATGGAAACTCCTCCTCGAGTAAATGGAAACATGATAGTG
CCAATTGATGCCTATAAAGGAAATGATAACTCGACTTTTGTCGATGAACGCATGTAA
>g13851.t1 Gene=g13851 Length=498
MNNKFLKEHLLTILTVSSVVLGVIVGIIVRASVLDGDDDKFKARTIMYVNFLGDLFLRML
KSLILPLIISSLIAAVGSLDISLSKTIGLRAIAYYLLTTVFAVILGIILVMTIRPGVDRS
ENSNENTTTPAAVQRAITTPDTMLDLVRNIFPPNLVQACMQQYQTVLTPNKIQNMSDPTN
SSNYVLGTDLDEFIISGKYVDSMNVMGIVVASIVFGIAIASTREHSRNLLSVCNELSHVM
MKVTRWVIWLSPIGVFFLVLSKLMEMENILDVFAKLGLYFVTVAGGIIFHGFVILPAIYF
FLTKKNPVKFVGNMAQAIATAFGTSSSSATLPVTMECLEHNNKVDGRVTRFVLPIGATIN
MDGTALYEAVAALFIAQLRKVPLSFTQIVAVSITSTAASIGAAGIPQAGLVTLVMVLDTV
GLPAEDVTYIIAIDWIIDRIRTVVNVLGDSFGAAIVEHYSKKDLERSMETPPRVNGNMIV
PIDAYKGNDNSTFVDERM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g13851.t1 | Gene3D | G3DSA:1.10.3860.10 | Proton glutamate symport protein | 2 | 168 | 5.0E-31 |
| 14 | g13851.t1 | Gene3D | G3DSA:1.10.3860.10 | Proton glutamate symport protein | 193 | 471 | 5.5E-101 |
| 2 | g13851.t1 | PANTHER | PTHR11958 | SODIUM/DICARBOXYLATE SYMPORTER-RELATED | 3 | 470 | 3.3E-180 |
| 8 | g13851.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 13 | 33 | 6.4E-90 |
| 4 | g13851.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 59 | 79 | 6.4E-90 |
| 5 | g13851.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 88 | 113 | 6.4E-90 |
| 9 | g13851.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 200 | 222 | 6.4E-90 |
| 3 | g13851.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 247 | 266 | 6.4E-90 |
| 11 | g13851.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 284 | 303 | 6.4E-90 |
| 7 | g13851.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 351 | 377 | 6.4E-90 |
| 10 | g13851.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 386 | 405 | 6.4E-90 |
| 6 | g13851.t1 | PRINTS | PR00173 | Glutamate-aspartate symporter signature | 413 | 433 | 6.4E-90 |
| 1 | g13851.t1 | Pfam | PF00375 | Sodium:dicarboxylate symporter family | 11 | 458 | 2.5E-129 |
| 15 | g13851.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 23 | g13851.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 33 | - |
| 19 | g13851.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 34 | 62 | - |
| 26 | g13851.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 63 | 81 | - |
| 16 | g13851.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 82 | 92 | - |
| 27 | g13851.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 93 | 113 | - |
| 21 | g13851.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 114 | 202 | - |
| 25 | g13851.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 203 | 222 | - |
| 18 | g13851.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 223 | 242 | - |
| 22 | g13851.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 243 | 264 | - |
| 20 | g13851.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 265 | 275 | - |
| 24 | g13851.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 276 | 302 | - |
| 17 | g13851.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 303 | 498 | - |
| 34 | g13851.t1 | ProSitePatterns | PS00714 | Sodium:dicarboxylate symporter family signature 2. | 354 | 377 | - |
| 12 | g13851.t1 | SUPERFAMILY | SSF118215 | Proton glutamate symport protein | 11 | 459 | 3.14E-109 |
| 32 | g13851.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 34 | - |
| 28 | g13851.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 62 | 84 | - |
| 33 | g13851.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 91 | 113 | - |
| 30 | g13851.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 203 | 222 | - |
| 29 | g13851.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 243 | 260 | - |
| 31 | g13851.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 280 | 302 | - |
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 transcript has been annotated with K05612 (solute carrier family 1 (neuronal/epithelial high affinity glutamate transporter), member 1)
Pathway
- This transcript belongs to the following pathways
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.
