Variant report

Variant	rs10399838
Chromosome Location	chr1:173500873-173500874
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs1024266	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10494490	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10737301	1.00[CHB][hapmap]
rs10737303	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10753078	0.95[CHB][hapmap]
rs10753083	0.82[YRI][hapmap]
rs10798283	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10798284	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10798285	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10798290	0.83[CEU][hapmap];0.81[CHB][hapmap]
rs10912624	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10912625	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10912626	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10912634	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10912635	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10912636	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10912641	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10912642	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10912643	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10912651	0.82[CEU][hapmap]
rs12026427	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12026637	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12026677	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12026993	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12027451	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12027495	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12033623	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12034341	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12035105	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12037210	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12041114	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12065426	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs12077271	0.81[ASN][1000 genomes]
rs12406352	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12406500	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12565753	0.81[ASN][1000 genomes]
rs12744504	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs12745058	0.81[ASN][1000 genomes]
rs1461014	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1461023	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1547155	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1547156	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16846113	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16846206	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1886639	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2017323	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2422433	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35607505	0.81[ASN][1000 genomes]
rs3934575	1.00[CHB][hapmap]
rs3934576	1.00[CHB][hapmap]
rs4244195	1.00[CHB][hapmap]
rs4294450	1.00[CHB][hapmap]
rs4310474	0.95[CHB][hapmap]
rs4336887	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4539167	1.00[CHB][hapmap]
rs4916365	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4916368	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60043192	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6425248	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6425249	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6425251	0.82[CEU][hapmap];0.80[CHB][hapmap]
rs6660804	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs6671141	0.85[CHB][hapmap]
rs6675929	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6681766	0.80[CHB][hapmap]
rs6687872	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6696443	0.81[ASN][1000 genomes]
rs6699094	0.95[CHB][hapmap]
rs6702320	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72709325	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs728908	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7413754	0.81[ASN][1000 genomes]
rs745573	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs745574	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7516544	0.81[ASN][1000 genomes]
rs7520814	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7524592	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs7525100	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs7530469	1.00[CHB][hapmap]
rs7541082	0.83[CEU][hapmap];0.81[CHB][hapmap]
rs7549074	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs912767	1.00[CHB][hapmap];0.91[JPT][hapmap]

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173496400-173501200	Enhancers	HUES6 Cell Line	embryonic stem cell
2	chr1:173496400-173501800	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr1:173496800-173501200	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr1:173496800-173501600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr1:173498600-173501000	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr1:173498600-173501400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr1:173498800-173501000	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr1:173498800-173501000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr1:173499000-173501600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr1:173499200-173501400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr1:173499400-173501200	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr1:173499400-173501200	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr1:173499600-173501000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr1:173499800-173501000	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr1:173499800-173501200	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr1:173499800-173501400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr1:173500000-173501400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr1:173500000-173501600	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr1:173500000-173501600	Enhancers	Primary T helper naive cells from peripheral blood	blood
20	chr1:173500000-173501600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr1:173500000-173501600	Enhancers	Colon Smooth Muscle	Colon
22	chr1:173500200-173501000	Flanking Active TSS	Brain Anterior Caudate	brain
23	chr1:173500400-173501200	Enhancers	H1 Cell Line	embryonic stem cell
24	chr1:173500400-173501200	Enhancers	Brain Substantia Nigra	brain
25	chr1:173500600-173501600	Weak transcription	Brain Cingulate Gyrus	brain
26	chr1:173500600-173501800	Enhancers	Brain Hippocampus Middle	brain
27	chr1:173500800-173501000	Enhancers	Rectal Smooth Muscle	rectum
28	chr1:173500800-173501400	Weak transcription	Adipose Nuclei	Adipose
29	chr1:173500800-173501800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr1:173500800-173501800	Active TSS	Stomach Smooth Muscle	stomach

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