General information for g9869.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Sodium- and chloride-dependent glycine transporter 1.
Parent gene
- The parent gene g9869 is located on chr_1: 5774709..5776427 (+ 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 | g9869 | g9869.t8 | isoform | g9869.t8 | 5771825 | 5775513 |
| chr_1 | g9869 | g9869.t8 | exon | g9869.t8.exon1 | 5771825 | 5771970 |
| chr_1 | g9869 | g9869.t8 | exon | g9869.t8.exon2 | 5774693 | 5774836 |
| chr_1 | g9869 | g9869.t8 | cds | g9869.t8.CDS1 | 5774713 | 5774836 |
| chr_1 | g9869 | g9869.t8 | exon | g9869.t8.exon3 | 5774898 | 5775120 |
| chr_1 | g9869 | g9869.t8 | cds | g9869.t8.CDS2 | 5774898 | 5775120 |
| chr_1 | g9869 | g9869.t8 | exon | g9869.t8.exon4 | 5775173 | 5775513 |
| chr_1 | g9869 | g9869.t8 | cds | g9869.t8.CDS3 | 5775173 | 5775512 |
| chr_1 | g9869 | g9869.t8 | TSS | g9869.t8 | NA | NA |
| chr_1 | g9869 | g9869.t8 | TTS | g9869.t8 | NA | NA |
Sequences
>g9869.t8 Gene=g9869 Length=854
GAATGGCGGTGGAGCTTTTTTACTGCCATATTTTCTTGCAGCAGTTTTTATTGGTTTGCC
AATATTTTTTGCTGAACTGATTACAGGACAATATAGTGGACTTGGGCCGATTAAAGCTTA
TAGTTATCTTGCTCCGCTCTTTAAAGGCTTGGGCTACTGCACATTTATGGTAATTTCTTT
CGTCAGCATTTACTATCAACTGATTATTGCGTGGGTCTTATTTTATCTTTATTCGTCATT
CTTTCCATCTCTTCGTTGGGGCACATGTGACAATGATTGGAATTCTGAAAACTGTTTCAG
TACAATTGAAGATTTATATTGTCGTCAAGAAAATGTTGGTAGTGCAAGTGATCAAATTTT
CTATCGTGGTGGATGCAGAGAGATTAACGAAATTTGTTCAATTCACGATTTGGTGGGCGT
TAATGCTAGCAATTGTATGAATACAACAACAAATGAACTTGTTCCCATTAATGATGTCAT
CACAAGAAGCCTCTCATCTGAAGAGTTTTTCTATGAACATGTTCTTGGTATTGGTGATGC
GAGATGGGACAACTTTGGTTATCCTCGATGGCAAATGGTCATTTTTCTATTTCTTGGTTG
GACACTTACATATTTGTGTTTAATCAAAGGCGTTCAGTCAATGGGAAAAGTCGTCTATTT
TACTGCCACATTTCCTTATGTCATTTTAACAGCTCTCTTAATTCGCTCATTAACATTAGA
AGGTTCTTATGAAGGCATCATGTTTTATATTACTCCACAATGGGAAAGATTACTTTCACC
TGGTGTTTGGGGTGATGCCAGCAGTCAAATTTTCTACTCATTTGGCTTAGCTTGTGGCAG
TCTTGTGGCTTTAG
>g9869.t8 Gene=g9869 Length=229
MVISFVSIYYQLIIAWVLFYLYSSFFPSLRWGTCDNDWNSENCFSTIEDLYCRQENVGSA
SDQIFYRGGCREINEICSIHDLVGVNASNCMNTTTNELVPINDVITRSLSSEEFFYEHVL
GIGDARWDNFGYPRWQMVIFLFLGWTLTYLCLIKGVQSMGKVVYFTATFPYVILTALLIR
SLTLEGSYEGIMFYITPQWERLLSPGVWGDASSQIFYSFGLACGSLVAL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g9869.t8 | PANTHER | PTHR11616 | SODIUM/CHLORIDE DEPENDENT TRANSPORTER | 2 | 229 | 5.4E-63 |
| 2 | g9869.t8 | Pfam | PF00209 | Sodium:neurotransmitter symporter family | 1 | 58 | 5.8E-13 |
| 1 | g9869.t8 | Pfam | PF00209 | Sodium:neurotransmitter symporter family | 85 | 229 | 1.7E-44 |
| 11 | g9869.t8 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 5 | - |
| 15 | g9869.t8 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 6 | 22 | - |
| 10 | g9869.t8 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 23 | 134 | - |
| 13 | g9869.t8 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 135 | 156 | - |
| 12 | g9869.t8 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 157 | 161 | - |
| 14 | g9869.t8 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 182 | - |
| 9 | g9869.t8 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 183 | 229 | - |
| 8 | g9869.t8 | ProSiteProfiles | PS50267 | Sodium:neurotransmitter symporter family profile. | 1 | 229 | 27.666 |
| 7 | g9869.t8 | SUPERFAMILY | SSF161070 | SNF-like | 2 | 228 | 1.83E-48 |
| 5 | g9869.t8 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
| 4 | g9869.t8 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 135 | 153 | - |
| 6 | g9869.t8 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 162 | 184 | - |
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 |
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