Variant report

Variant	rs6433246
Chromosome Location	chr2:171632998-171632999
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10165379	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10175644	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10181282	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10194303	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10432420	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10930438	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11895153	0.82[EUR][1000 genomes]
rs12612710	0.86[EUR][1000 genomes]
rs12613472	0.87[EUR][1000 genomes]
rs12619010	0.86[EUR][1000 genomes]
rs12994793	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13028382	0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1362489	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1362490	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1894919	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34002163	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3749036	0.81[EUR][1000 genomes]
rs3764915	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3764916	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4132720	0.87[EUR][1000 genomes]
rs6433235	0.86[EUR][1000 genomes]
rs6433238	0.87[EUR][1000 genomes]
rs6433247	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6433248	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs66833017	0.86[EUR][1000 genomes]
rs6711176	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6726371	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6736129	0.81[ASN][1000 genomes]
rs6738022	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6757195	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7580460	0.84[EUR][1000 genomes]
rs7608979	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs869954	0.87[EUR][1000 genomes]
rs953680	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs954321	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9973711	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6433246	GAD1	cis	Esophagus Mucosa	GTEx

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:171628800-171634000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:171629000-171634000	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr2:171629400-171641000	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr2:171629600-171658800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr2:171629800-171633400	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr2:171629800-171634000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr2:171630000-171633800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr2:171630000-171634200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr2:171630000-171635400	Weak transcription	Fetal Intestine Large	intestine
10	chr2:171630000-171635800	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr2:171630200-171634000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr2:171630200-171641800	Weak transcription	K562	blood

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