General information for g12286.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12286 is located on chr_1: 22154864..22158231 (- 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 | g12286 | g12286.t6 | TTS | g12286.t6 | 22151194 | 22151194 |
| chr_1 | g12286 | g12286.t6 | isoform | g12286.t6 | 22151207 | 22152002 |
| chr_1 | g12286 | g12286.t6 | exon | g12286.t6.exon1 | 22151207 | 22151585 |
| chr_1 | g12286 | g12286.t6 | cds | g12286.t6.CDS1 | 22151535 | 22151585 |
| chr_1 | g12286 | g12286.t6 | exon | g12286.t6.exon2 | 22151646 | 22151748 |
| chr_1 | g12286 | g12286.t6 | cds | g12286.t6.CDS2 | 22151646 | 22151748 |
| chr_1 | g12286 | g12286.t6 | exon | g12286.t6.exon3 | 22151805 | 22151939 |
| chr_1 | g12286 | g12286.t6 | cds | g12286.t6.CDS3 | 22151805 | 22151878 |
| chr_1 | g12286 | g12286.t6 | exon | g12286.t6.exon4 | 22151995 | 22152002 |
| chr_1 | g12286 | g12286.t6 | TSS | g12286.t6 | NA | NA |
Sequences
>g12286.t6 Gene=g12286 Length=625
GCTGTTAGTGTAACAGCCACTGCCGCGTCAATTGGTGCCGCAGGCATTCCGCAAGCTGGT
TTAATCACAATGGTTATGGTTCTTGATACTGTGGGTTTGCCTGCTGAAGATGTCACAATT
ATTATTGCAGTCGATTGGCTTCTTGATCGATTCCGAACAACAATTAATGTTATGTGTGAC
GCACTTGGTACTATTCTTGTAGACCATTTATCAAAAGGAGAATTGAGTGCAACTAATGCG
AGATTGGAATCGGGTGAGCCACATGAGTTAGTTGAATTACATCATTCAAAGGAATAAAGT
GAGGATAGTGAAAACGATGAATCCATTTAGAATTTTCAGAAAAGCTTTTATTGATGAAAG
CTTCCATTAAGTTTTTGTTTCATAAAAAATGATTTTTACTTACTAAAAATGTGGCTCATA
TTGATTGTTTAAAATGAAGAGAGCTATCATTGATTTGTTCAAATTAAAACAGTTGATATG
AGTGTGGTCATGTTAATTTGAATGCATATTGAAGAAAAATTATTAATATGTAAAAATAGC
AATTAGGAACAGAAGAAAAATTTTAATTTCGATTTCTGCTTTTTAATTTTTAATTTTTGT
TTCCTTTAAAGTTCAAATAAAAAAA
>g12286.t6 Gene=g12286 Length=75
MVMVLDTVGLPAEDVTIIIAVDWLLDRFRTTINVMCDALGTILVDHLSKGELSATNARLE
SGEPHELVELHHSKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g12286.t6 | Gene3D | G3DSA:1.10.3860.10 | Proton glutamate symport protein | 1 | 63 | 0 |
| 2 | g12286.t6 | PANTHER | PTHR11958:SF63 | AMINO ACID TRANSPORTER | 1 | 66 | 0 |
| 3 | g12286.t6 | PANTHER | PTHR11958 | SODIUM/DICARBOXYLATE SYMPORTER-RELATED | 1 | 66 | 0 |
| 1 | g12286.t6 | Pfam | PF00375 | Sodium:dicarboxylate symporter family | 1 | 46 | 0 |
| 4 | g12286.t6 | SUPERFAMILY | SSF118215 | Proton glutamate symport protein | 1 | 47 | 0 |
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.
