Variant report

Variant	rs1557143
Chromosome Location	chr6:44756415-44756416
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	chr6:44753701..44756475-chr6:44765560..44767104,2	K562	blood:
2	chr6:44749501..44752390-chr6:44755205..44757240,2	MCF-7	breast:

Extended variants
information (count: 147 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:147)

rs_ID	r²[population]
rs1041333	0.81[AMR][1000 genomes]
rs10456119	0.81[ASN][1000 genomes]
rs10484627	0.84[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs10948183	0.95[CHB][hapmap];0.82[ASN][1000 genomes]
rs10948185	0.89[CHB][hapmap]
rs10948186	0.93[CEU][hapmap];0.90[CHB][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10948187	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[YRI][hapmap]
rs10948188	0.89[CHB][hapmap]
rs10948190	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[YRI][hapmap]
rs10948194	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[YRI][hapmap]
rs12190136	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12190513	0.95[CHB][hapmap]
rs12191518	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12192367	1.00[CHB][hapmap];0.83[JPT][hapmap];0.96[ASN][1000 genomes]
rs12196818	0.89[CHB][hapmap]
rs12207620	0.80[ASN][1000 genomes]
rs12209076	0.82[ASN][1000 genomes]
rs12214778	0.89[CHB][hapmap]
rs12525009	0.85[CHB][hapmap];0.81[ASN][1000 genomes]
rs12526711	0.83[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs12529522	0.82[JPT][hapmap]
rs12530016	0.82[JPT][hapmap]
rs1293457	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1293467	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1293598	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13199289	0.82[ASN][1000 genomes]
rs13206526	0.88[JPT][hapmap]
rs13213412	0.81[ASN][1000 genomes]
rs13215618	1.00[CHB][hapmap]
rs13216116	0.89[CHB][hapmap]
rs1329716	0.93[CEU][hapmap];0.95[CHB][hapmap]
rs1342370	0.96[ASN][1000 genomes]
rs1360197	0.90[CHB][hapmap]
rs1402599	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs1418434	0.96[ASN][1000 genomes]
rs1521355	0.90[CHB][hapmap]
rs16869119	0.89[JPT][hapmap]
rs16872574	0.81[ASN][1000 genomes]
rs17422760	0.84[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs1854547	0.81[AMR][1000 genomes]
rs1891411	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1891412	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1935549	0.80[ASN][1000 genomes]
rs1935551	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1980265	0.93[CEU][hapmap];0.95[CHB][hapmap];0.88[YRI][hapmap];0.81[AMR][1000 genomes]
rs2038555	0.94[ASN][1000 genomes]
rs2038556	0.96[ASN][1000 genomes]
rs2038557	0.96[ASN][1000 genomes]
rs2040032	0.96[ASN][1000 genomes]
rs2139863	0.89[JPT][hapmap]
rs2145826	0.92[EUR][1000 genomes]
rs227849	0.85[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.92[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2396369	0.89[CHB][hapmap]
rs2396371	1.00[CEU][hapmap];0.95[CHB][hapmap]
rs2894599	0.81[ASN][1000 genomes]
rs34808716	0.81[ASN][1000 genomes]
rs34817919	0.81[ASN][1000 genomes]
rs3778507	0.93[CEU][hapmap];0.95[CHB][hapmap];0.88[YRI][hapmap];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3799965	0.88[JPT][hapmap]
rs3799967	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3799968	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.84[YRI][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3799971	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.85[YRI][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3799972	0.89[JPT][hapmap]
rs3799973	0.95[CHB][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs3799974	0.89[JPT][hapmap]
rs3799976	0.90[CHB][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs3799977	0.89[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs3799979	0.89[CHB][hapmap];0.83[JPT][hapmap]
rs3799981	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs3799984	0.90[CHB][hapmap];0.83[JPT][hapmap]
rs3799986	0.89[CHB][hapmap]
rs3823252	0.88[JPT][hapmap]
rs3846896	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3957281	0.81[ASN][1000 genomes]
rs4512220	0.81[CHB][hapmap]
rs4711798	0.96[ASN][1000 genomes]
rs4711799	0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711803	0.82[ASN][1000 genomes]
rs4711805	0.81[ASN][1000 genomes]
rs4711807	0.90[CHB][hapmap]
rs4714812	0.82[JPT][hapmap]
rs4714819	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4714820	0.94[ASN][1000 genomes]
rs4714821	0.93[ASN][1000 genomes]
rs4714822	0.96[ASN][1000 genomes]
rs4714825	0.80[ASN][1000 genomes]
rs4714828	0.89[CHB][hapmap];0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs4714830	0.89[CHB][hapmap]
rs472672	0.80[ASN][1000 genomes]
rs494982	1.00[CEU][hapmap];0.95[CHB][hapmap]
rs500773	0.82[ASN][1000 genomes]
rs524492	0.88[JPT][hapmap]
rs538801	0.80[CEU][hapmap];0.90[CHB][hapmap];0.81[ASN][1000 genomes]
rs542444	0.88[JPT][hapmap]
rs562016	0.80[ASN][1000 genomes]
rs588848	0.81[ASN][1000 genomes]
rs59881382	0.85[ASN][1000 genomes]
rs608941	0.89[CHB][hapmap];0.81[ASN][1000 genomes]
rs636845	0.93[CEU][hapmap];0.95[CHB][hapmap]
rs6458415	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs66642874	0.81[ASN][1000 genomes]
rs6903576	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6904015	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6910294	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6910749	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6919161	0.80[CHB][hapmap]
rs6923519	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6925017	0.89[CHB][hapmap]
rs71564699	0.83[ASN][1000 genomes]
rs718112	0.81[ASN][1000 genomes]
rs72664273	0.80[ASN][1000 genomes]
rs72664274	0.81[ASN][1000 genomes]
rs764396	0.85[ASN][1000 genomes]
rs764397	0.85[ASN][1000 genomes]
rs7747642	0.80[ASN][1000 genomes]
rs7749865	0.90[CHB][hapmap]
rs7754378	0.95[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs7754698	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7763421	0.81[CHB][hapmap];0.82[ASN][1000 genomes]
rs7769218	0.87[JPT][hapmap]
rs929614	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296450	0.84[CHB][hapmap]
rs9349303	0.93[CEU][hapmap];0.83[EUR][1000 genomes]
rs9357459	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357464	1.00[CEU][hapmap];0.95[CHB][hapmap]
rs9367208	0.83[AFR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9367211	1.00[CEU][hapmap];0.82[JPT][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9369512	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9369513	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9369514	0.89[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9369515	0.83[EUR][1000 genomes]
rs9369516	1.00[CEU][hapmap];0.95[CHB][hapmap];0.83[JPT][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9369523	0.86[CEU][hapmap]
rs9395049	0.96[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.97[ASN][1000 genomes]
rs9395051	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9395055	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9472331	0.83[JPT][hapmap]
rs9472336	0.85[ASN][1000 genomes]
rs9472339	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9472360	0.96[ASN][1000 genomes]
rs9472376	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs9472383	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9472407	0.95[CHB][hapmap];0.83[JPT][hapmap]
rs9472409	0.95[CHB][hapmap]
rs9472414	0.85[CHB][hapmap]
rs9472416	0.95[CHB][hapmap]
rs976699	1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[YRI][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1557143	SUPT3H	Cis_1M	lymphoblastoid	RTeQTL
rs1557143	SUPT3H	cis	multi-tissue	Pritchard

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44755000-44757200	Enhancers	Primary T helper cells fromperipheralblood	blood
2	chr6:44755200-44756800	Enhancers	Dnd41	blood
3	chr6:44755600-44756800	Enhancers	Primary T cells from cord blood	blood
4	chr6:44755600-44757200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:44755800-44757400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:44756000-44756600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr6:44756000-44757000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:44756000-44757200	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr6:44756000-44757200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:44756200-44756600	Flanking Active TSS	Osteobl	bone
11	chr6:44756200-44761600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr6:44756400-44757000	Enhancers	NHLF	lung
13	chr6:44756400-44759200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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