ZFIN is now using GRCz12tu for Genomic Data

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

Genome Assembly

GRCz12tu

Annotation Status

Current

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

Expression

All Expression Data

7 figures from 4 publications

Cross-Species Comparison

High Throughput Data

Expression Atlas

UO scRNA-seq (UCSC browser)

Single Cell Expression Atlas

Daniocell

Thisse Expression Data

No data available

Wild Type Expression Summary

Phenotype

All Phenotype Data: 12 figures from 5 publications
Cross-Species Comparison: Alliance

Phenotype Summary

Mutations

Mutants

Sequence Targeting Reagents

Human Disease

Associated With slc6a9 Human Ortholog

Disease Ontology Term	Multi-Species Data	OMIM Term	OMIM Phenotype ID
		Glycine encephalopathy with normal serum glycine	617301
		{Scoliosis, isolated, susceptibility to, 6}	621428

Associated With slc6a9 Via Experimental Models

Human Disease	Fish	Conditions	Citations
idiopathic scoliosis	slc6a9^chk1/chk1 (TU)	standard conditions	Wang et al., 2023
idiopathic scoliosis	slc6a9^chk1/+ (TU)	standard conditions	Wang et al., 2023

Gene Ontology

Protein Domains

Domain, Family, and Site Summary

Type	InterPro ID	Name
Family	IPR000175	Sodium:neurotransmitter symporter
Family	IPR003028	Sodium:neurotransmitter symporter, glycine, type 1
Homologous_superfamily	IPR037272	Sodium:neurotransmitter symporter superfamily

Domain Details Per Protein

Protein	Additional Resources	Length
UniProtKB:Q4FIV7	InterPro	649
UniProtKB:Q4FIV5	InterPro	644
UniProtKB:Q4FIV6	InterPro	653

Transcripts

Genome Browsers

NCBI Map Viewer

ZFIN

Type	Name	Annotation Method	Length (nt)	Analysis
mRNA	slc6a9-201 (1) Ensembl	Ensembl	9,709 nt	Select Tool ZFIN BLAST
mRNA	slc6a9-202 (1) Ensembl	Ensembl	1,935 nt	Select Tool ZFIN BLAST
mRNA	slc6a9-203 (1) Ensembl	Ensembl	2,372 nt	Select Tool ZFIN BLAST
mRNA	slc6a9-204 (1) Ensembl	Ensembl	254 nt	Select Tool ZFIN BLAST
mRNA	slc6a9-205 (1) Ensembl	Ensembl	1,962 nt	Select Tool ZFIN BLAST

Interactions and Pathways

No data available

Antibodies

No data available

Plasmids

No data available

Constructs

Marker Relationships

Sequences

Genome Browsers

NCBI Map Viewer

ZFIN

Orthology

Comparative Orthology: Alliance
Gene Tree: Ensembl

Citations