Variant report

Variant	rs2145826
Chromosome Location	chr6:44763781-44763782
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:44763455..44766382-chr6:44767163..44768857,2	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1022730	0.82[ASN][1000 genomes]
rs1022731	0.82[ASN][1000 genomes]
rs10948186	0.85[CEU][hapmap]
rs10948187	0.93[CEU][hapmap]
rs10948190	0.92[CEU][hapmap]
rs10948194	0.93[CEU][hapmap]
rs10948195	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12215252	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12216059	1.00[YRI][hapmap]
rs1293457	0.93[EUR][1000 genomes]
rs1293467	0.92[EUR][1000 genomes]
rs1329716	0.85[CEU][hapmap]
rs1338907	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1342640	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1360196	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1418433	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1557143	0.92[EUR][1000 genomes]
rs1832897	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1891411	0.93[EUR][1000 genomes]
rs1935551	0.84[EUR][1000 genomes]
rs1980265	0.85[CEU][hapmap]
rs227831	0.82[ASN][1000 genomes]
rs227837	0.86[AMR][1000 genomes]
rs227838	0.86[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs227841	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs227843	0.81[ASN][1000 genomes]
rs227847	0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs227848	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs227849	0.85[CEU][hapmap]
rs227850	0.85[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs227851	0.85[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs227854	0.90[JPT][hapmap]
rs227855	0.85[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2396371	0.93[CEU][hapmap]
rs3778507	0.85[CEU][hapmap]
rs3799967	0.93[CEU][hapmap];0.84[EUR][1000 genomes]
rs3799968	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs3799971	0.93[CEU][hapmap];0.83[EUR][1000 genomes]
rs3799978	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3846896	0.83[EUR][1000 genomes]
rs494982	0.93[CEU][hapmap]
rs57020561	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs636845	0.85[CEU][hapmap]
rs6458412	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6458415	0.93[CEU][hapmap]
rs6904015	0.93[CEU][hapmap];0.84[EUR][1000 genomes]
rs6910294	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs6910749	0.91[EUR][1000 genomes]
rs7754698	0.83[EUR][1000 genomes]
rs911524	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs929614	0.91[EUR][1000 genomes]
rs9349303	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9357459	0.84[EUR][1000 genomes]
rs9357464	0.93[CEU][hapmap]
rs9367208	0.82[EUR][1000 genomes]
rs9367211	0.93[CEU][hapmap]
rs9369512	0.86[EUR][1000 genomes]
rs9369513	0.84[EUR][1000 genomes]
rs9369514	0.96[CEU][hapmap];0.86[EUR][1000 genomes]
rs9369515	0.91[CHB][hapmap];0.87[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9369516	0.93[CEU][hapmap];0.82[EUR][1000 genomes]
rs9369523	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9395049	0.89[CEU][hapmap]
rs9395051	0.93[CEU][hapmap];0.82[EUR][1000 genomes]
rs9472383	0.82[EUR][1000 genomes]
rs9472403	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9472418	0.83[AMR][1000 genomes]
rs976699	0.92[CEU][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2145826	SUPT3H	Cis_1M	lymphoblastoid	RTeQTL
rs2145826	SUPT3H	cis	multi-tissue	Pritchard

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44761800-44776200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr6:44762000-44768000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr6:44762400-44765800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr6:44762600-44765000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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