Gene
slc6a9
- ID
- ZDB-GENE-050105-3
- Name
- solute carrier family 6 member 9
- Symbol
- slc6a9 Nomenclature History
- Previous Names
-
- glyt1 (2)
- sho
- shocked
- Type
- protein_coding_gene
- Location
- Chr: 2 Mapping Details/Browsers
- Description
- Enables glycine transmembrane transporter activity. Acts upstream of or within several processes, including glycine transport; inhibitory postsynaptic potential; and regulation of glycinergic synaptic transmission. Predicted to be located in membrane. Predicted to be active in plasma membrane. Is expressed in fourth ventricle; hindbrain; neural rod; optic tectum; and spinal cord. Used to study idiopathic scoliosis. Orthologous to human SLC6A9 (solute carrier family 6 member 9).
- Genome Resources
- Note
- None
- Comparative Information
-
- All Expression Data
- 7 figures from 4 publications
- Cross-Species Comparison
- High Throughput Data
- Thisse Expression Data
- No data available
Wild Type Expression Summary
- All Phenotype Data
- 12 figures from 5 publications
- Cross-Species Comparison
- Alliance
Phenotype Summary
Mutations
| Allele | Type | Localization | Consequence | Mutagen | Supplier |
|---|---|---|---|---|---|
| chk1 | Allele with one deletion | Unknown | Unknown | CRISPR | |
| la023611Tg | Transgenic insertion | Unknown | Unknown | DNA | |
| sa19804 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa19805 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| sa39868 | Allele with one point mutation | Unknown | Premature Stop | ENU | |
| ta51e | unknown | Unknown | Unknown | ENU | |
| ta229g | unknown | Unknown | Unknown | ENU | |
| te301 | unknown | Unknown | Unknown | ENU |
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| Targeting Reagent | Created Alleles | Citations |
|---|---|---|
| CRISPR1-slc6a9 | Wang et al., 2023 | |
| MO1-slc6a9 | N/A | (2) |
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Human Disease
| Disease Ontology Term | Multi-Species Data | OMIM Term | OMIM Phenotype ID |
|---|---|---|---|
| Glycine encephalopathy with normal serum glycine | 617301 |
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| Human Disease | Fish | Conditions | Citations |
|---|---|---|---|
| idiopathic scoliosis | slc6a9chk1/chk1 (TU) | standard conditions | Wang et al., 2023 |
| idiopathic scoliosis | slc6a9chk1/+ (TU) | standard conditions | Wang et al., 2023 |
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Domain, Family, and Site Summary
Domain Details Per Protein
| Protein | Additional Resources | Length | Sodium:neurotransmitter symporter | Sodium:neurotransmitter symporter, glycine, type 1 | Sodium:neurotransmitter symporter superfamily |
|---|---|---|---|---|---|
| UniProtKB:Q4FIV7 | InterPro | 649 | |||
| UniProtKB:Q4FIV5 | InterPro | 644 | |||
| UniProtKB:Q4FIV6 | InterPro | 653 |
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| Type | Name | Annotation Method | Has Havana Data | Length (nt) | Analysis |
|---|---|---|---|---|---|
| mRNA |
slc6a9-201
(1)
|
Ensembl | 9,709 nt | ||
| mRNA |
slc6a9-202
(1)
|
Ensembl | 1,935 nt | ||
| mRNA |
slc6a9-203
(1)
|
Ensembl | 2,372 nt | ||
| mRNA |
slc6a9-204
(1)
|
Ensembl | 254 nt | ||
| mRNA |
slc6a9-205
(1)
|
Ensembl | 1,962 nt |
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Interactions and Pathways
No data available
Plasmids
No data available
| Construct | Regulatory Region | Coding Sequence | Species | Tg Lines | Citations |
|---|---|---|---|---|---|
| TgBAC(slc6a9:EGFP) |
|
| 1 | Wang et al., 2020 |
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| Relationship | Marker Type | Marker | Accession Numbers | Citations |
|---|---|---|---|---|
| Contained in | BAC | CH211-261P7 | ZFIN Curated Data |
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| Type | Accession # | Sequence | Length (nt/aa) | Analysis |
|---|---|---|---|---|
| RNA | RefSeq:NM_001030073 (1) | 1935 nt | ||
| Genomic | GenBank:BX537271 (1) | 169504 nt | ||
| Polypeptide | UniProtKB:Q4FIV6 (1) | 653 aa |
- Shainer, I., Kuehn, E., Laurell, E., Al Kassar, M., Mokayes, N., Sherman, S., Larsch, J., Kunst, M., Baier, H. (2023) A single-cell resolution gene expression atlas of the larval zebrafish brain. Science advances. 9:eade9909
- Wang, X., Yue, M., Cheung, J.P.Y., Cheung, P.W.H., Fan, Y., Wu, M., Wang, X., Zhao, S., Khanshour, A.M., Rios, J.J., Chen, Z., Wang, X., Tu, W., Chan, D., Yuan, Q., Qin, D., Qiu, G., Wu, Z., Zhang, J., Ikegawa, S., Wu, N., Wise, C.A., Hu, Y., Luk, K.D.K., Song, Y.Q., Gao, B. (2023) Impaired glycine neurotransmission causes adolescent idiopathic scoliosis. The Journal of Clinical Investigation. 134(2):
- Song, Y., Chen, W., Zhu, B., Ge, W. (2022) Disruption of Epidermal Growth Factor Receptor but Not EGF Blocks Follicle Activation in Zebrafish Ovary. Frontiers in cell and developmental biology. 9:750888
- Venincasa, M.J., Randlett, O., Sumathipala, S.H., Bindernagel, R., Stark, M.J., Yan, Q., Sloan, S.A., Buglo, E., Meng, Q.C., Engert, F., Züchner, S., Kelz, M.B., Syed, S., Dallman, J.E. (2021) Elevated preoptic brain activity in zebrafish glial glycine transporter mutants is linked to lethargy-like behaviors and delayed emergence from anesthesia. Scientific Reports. 11:3148
- Wang, M., Du, L., Lee, A.C., Li, Y., Qin, H., He, J. (2020) Different lineage contexts direct common pro-neural factors to specify distinct retinal cell subtypes. The Journal of cell biology. 219(9):
- Liu, H., Liu, Z.Z. (2019) Aggressive-like behavior and increased glycine transporters in a zebrafish model of CHARGE syndrome. Behavioural brain research. 378:112293
- Wan, Y., Wei, Z., Looger, L.L., Koyama, M., Druckmann, S., Keller, P.J. (2019) Single-Cell Reconstruction of Emerging Population Activity in an Entire Developing Circuit. Cell. 179(2):355-372.e23
- Yang, L., Jiang, H., Chen, J., Lei, Y., Sun, N., Lv, W., Near, T.J., He, S. (2019) Comparative Genomics Reveals Accelerated Evolution of Fright Reaction Genes in Ostariophysan Fishes. Frontiers in genetics. 10:1283
- Allalou, A., Wu, Y., Ghannad-Rezaie, M., Eimon, P.M., Yanik, M.F. (2017) Automated deep-phenotyping of the vertebrate brain. eLIFE. 6
- Bayés, À., Collins, M.O., Reig-Viader, R., Gou, G., Goulding, D., Izquierdo, A., Choudhary, J.S., Emes, R.D., Grant, S.G. (2017) Evolution of complexity in the zebrafish synapse proteome. Nature communications. 8:14613
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