Variant report

Variant	rs6733319
Chromosome Location	chr2:210465558-210465559
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 104 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs10172200	0.87[JPT][hapmap]
rs10196314	0.87[JPT][hapmap]
rs10196600	0.87[JPT][hapmap]
rs10198751	0.92[JPT][hapmap];0.99[ASN][1000 genomes]
rs10206817	0.93[JPT][hapmap]
rs10490021	0.87[JPT][hapmap]
rs10932305	0.87[JPT][hapmap]
rs11692075	0.87[JPT][hapmap]
rs12613705	0.84[CHD][hapmap]
rs12614031	0.87[JPT][hapmap]
rs12615372	0.92[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12616589	0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs12618080	0.85[CHD][hapmap];0.87[JPT][hapmap]
rs12620654	0.88[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12622979	1.00[ASN][1000 genomes]
rs12992342	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13385585	0.87[JPT][hapmap]
rs13419929	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1396779	0.92[ASN][1000 genomes]
rs1509465	0.84[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs1509468	0.88[JPT][hapmap]
rs1509469	0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs1509470	0.86[ASN][1000 genomes]
rs16843329	0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs16843351	0.93[JPT][hapmap]
rs16843354	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs16843360	0.84[CHD][hapmap];0.86[JPT][hapmap]
rs16843382	0.82[CHD][hapmap];0.87[JPT][hapmap]
rs16843453	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs16843614	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs16843618	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs169636	0.84[CHB][hapmap];0.82[CHD][hapmap];0.93[JPT][hapmap];0.85[MKK][hapmap]
rs2048250	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs2191910	0.87[JPT][hapmap]
rs2239552	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs2239553	0.87[JPT][hapmap]
rs2239672	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs2268042	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs2268044	0.87[JPT][hapmap]
rs2271252	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs2286849	0.86[JPT][hapmap]
rs2286850	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs2300154	0.87[JPT][hapmap]
rs2366112	0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2663648	0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs2663649	0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs2663650	0.84[ASN][1000 genomes]
rs2663651	0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs2663653	0.90[CHB][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs2663659	0.92[CHB][hapmap];0.97[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2710474	0.99[ASN][1000 genomes]
rs2710475	0.98[ASN][1000 genomes]
rs2710477	0.82[CHB][hapmap];0.92[JPT][hapmap];0.84[ASN][1000 genomes]
rs2710479	0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs2710482	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs2710486	0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs288079	0.84[CHB][hapmap];0.93[JPT][hapmap]
rs288081	0.84[CHB][hapmap];0.82[CHD][hapmap];0.93[JPT][hapmap];0.83[MKK][hapmap]
rs288087	0.93[JPT][hapmap]
rs34455059	0.97[ASN][1000 genomes]
rs34850994	0.98[ASN][1000 genomes]
rs35409969	0.97[ASN][1000 genomes]
rs3738935	0.88[CHD][hapmap];0.81[JPT][hapmap]
rs3754597	0.87[JPT][hapmap]
rs3768810	0.87[JPT][hapmap]
rs3768813	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs3768814	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs3768815	0.87[JPT][hapmap]
rs3768816	0.87[JPT][hapmap]
rs3768822	0.87[JPT][hapmap]
rs3768826	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs3768832	0.87[JPT][hapmap]
rs3768833	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs3768834	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs3768835	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs3820746	0.91[JPT][hapmap]
rs3820748	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs4673486	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs55911510	0.98[ASN][1000 genomes]
rs56023260	0.86[ASN][1000 genomes]
rs56775639	0.97[ASN][1000 genomes]
rs56853570	0.99[ASN][1000 genomes]
rs57781584	0.91[ASN][1000 genomes]
rs58636345	0.99[ASN][1000 genomes]
rs59032380	0.97[ASN][1000 genomes]
rs60138527	0.86[ASN][1000 genomes]
rs60359169	1.00[ASN][1000 genomes]
rs60497472	0.91[ASN][1000 genomes]
rs6709925	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs6717554	0.87[JPT][hapmap]
rs6720659	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs6724834	0.87[JPT][hapmap]
rs6726061	1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.91[MKK][hapmap];0.92[ASN][1000 genomes]
rs6746029	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs723683	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs73071071	0.99[ASN][1000 genomes]
rs73071085	0.99[ASN][1000 genomes]
rs741006	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs741007	0.88[CHD][hapmap];0.86[JPT][hapmap]
rs7594601	0.88[CHD][hapmap];0.87[JPT][hapmap]
rs906831	0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9288410	0.92[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs962475	0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs994862	0.87[JPT][hapmap]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs6733319	CRYGD	cis	parietal	SCAN
rs6733319	TEPP	trans	cerebellum	SCAN
rs6733319	SNORA41	cis	parietal	SCAN
rs6733319	GPR1	cis	cerebellum	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:210460600-210477400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr2:210461800-210469400	Weak transcription	Brain Angular Gyrus	brain
3	chr2:210464200-210465600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr2:210464600-210467000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr2:210465000-210465800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr2:210465000-210467600	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr2:210465000-210467800	Enhancers	Fetal Brain Male	brain
8	chr2:210465200-210465600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr2:210465200-210465600	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr2:210465200-210465800	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr2:210465200-210465800	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr2:210465200-210465800	Enhancers	Fetal Brain Female	brain
13	chr2:210465200-210466400	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr2:210465400-210465600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr2:210465400-210465600	Flanking Active TSS	Brain Germinal Matrix	brain
16	chr2:210465400-210465800	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr2:210465400-210468400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr2:210465400-210475200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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