Variant report

Variant	rs9472336
Chromosome Location	chr6:44710392-44710393
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:44709340..44711190-chr6:45455747..45458398,2	K562	blood:

Extended variants
information (count: 74 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10484627	0.84[CHB][hapmap]
rs10807302	0.85[AFR][1000 genomes]
rs10948183	0.81[CEU][hapmap];0.95[CHB][hapmap]
rs10948185	0.89[CHB][hapmap]
rs10948186	0.89[CHB][hapmap]
rs12190136	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12192367	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12197593	0.81[AFR][1000 genomes]
rs12204270	0.80[AFR][1000 genomes]
rs12525009	0.84[CHB][hapmap]
rs12526711	0.82[CHB][hapmap]
rs1293457	0.85[ASN][1000 genomes]
rs1293467	0.85[ASN][1000 genomes]
rs1342370	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1418434	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1557143	0.85[ASN][1000 genomes]
rs17422760	0.81[CEU][hapmap];0.84[CHB][hapmap];0.87[MEX][hapmap]
rs1891411	0.85[ASN][1000 genomes]
rs1891412	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1935551	0.85[ASN][1000 genomes]
rs2038555	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2038556	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2038557	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2040032	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs227845	0.80[ASN][1000 genomes]
rs227849	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs227850	0.89[TSI][hapmap]
rs227851	0.86[TSI][hapmap]
rs227852	0.90[CHD][hapmap];0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs227853	0.90[CHD][hapmap];0.83[JPT][hapmap]
rs3778507	0.95[CHB][hapmap];0.84[GIH][hapmap];0.82[MEX][hapmap]
rs3799967	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs3799968	1.00[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];0.82[MEX][hapmap]
rs3799971	1.00[CHB][hapmap]
rs3799973	0.94[CHB][hapmap]
rs3799976	0.89[CHB][hapmap]
rs3799977	0.89[CHB][hapmap]
rs3799979	0.89[CHB][hapmap]
rs3799981	0.89[CHB][hapmap]
rs3799984	0.89[CHB][hapmap]
rs3799986	0.89[CHB][hapmap]
rs4711798	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4711799	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4714812	0.90[CHD][hapmap];0.89[JPT][hapmap]
rs4714819	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4714820	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4714821	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4714822	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4714828	0.89[CHB][hapmap]
rs538801	0.89[CHB][hapmap]
rs59881382	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs608941	0.89[CHB][hapmap]
rs6458415	0.95[CHB][hapmap]
rs6904015	1.00[CHB][hapmap];0.83[JPT][hapmap];0.85[ASN][1000 genomes]
rs6910294	0.95[CHB][hapmap];0.83[ASN][1000 genomes]
rs6910749	0.85[ASN][1000 genomes]
rs71564699	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs764396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs764397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7754378	0.80[CEU][hapmap];0.95[CHB][hapmap];0.86[MEX][hapmap]
rs7754698	1.00[CHB][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs929614	0.85[ASN][1000 genomes]
rs9357459	0.85[ASN][1000 genomes]
rs9367211	0.84[GIH][hapmap]
rs9369512	0.85[ASN][1000 genomes]
rs9369513	0.85[ASN][1000 genomes]
rs9369514	1.00[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];0.85[ASN][1000 genomes]
rs9369516	0.95[CHB][hapmap];0.84[GIH][hapmap];0.82[MEX][hapmap]
rs9395049	0.95[CHB][hapmap];0.90[CHD][hapmap];0.82[ASN][1000 genomes]
rs9395051	1.00[CHB][hapmap];0.84[GIH][hapmap];0.82[MEX][hapmap]
rs9472331	0.89[JPT][hapmap]
rs9472339	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9472360	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9472407	0.83[CEU][hapmap];0.94[CHB][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9472336	SUPT3H	cis	lymphoblastoid	seeQTL
rs9472336	SUPT3H	cis	multi-tissue	Pritchard
rs9472336	C6orf226	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44706600-44710400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr6:44706800-44710400	Weak transcription	Duodenum Mucosa	Duodenum
3	chr6:44709800-44710800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:44710000-44710600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr6:44710000-44711400	Enhancers	Fetal Intestine Large	intestine
6	chr6:44710000-44711600	Enhancers	Fetal Intestine Small	intestine
7	chr6:44710000-44712400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

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