Variant report

Variant	rs673870
Chromosome Location	chr3:59770221-59770222
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1352020	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2629880	1.00[ASN][1000 genomes]
rs517711	0.81[CEU][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs575388	0.87[EUR][1000 genomes]
rs629627	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs780344	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs780346	0.89[CEU][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs780347	0.90[CEU][hapmap];0.85[YRI][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs780348	0.83[EUR][1000 genomes]
rs780359	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs780360	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs780361	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs780362	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs780371	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014601	chr3:59666609-59888166	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv1003387	chr3:59756364-59831340	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv460562	chr3:59760118-59826778	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv590381	chr3:59760118-59826778	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv590382	chr3:59763809-59793062	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59760400-59776000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr3:59761000-59772400	Weak transcription	Fetal Brain Male	brain
3	chr3:59768800-59770800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
4	chr3:59769000-59770800	Enhancers	Primary T cells fromperipheralblood	blood
5	chr3:59769200-59770400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr3:59769200-59770400	Genic enhancers	Dnd41	blood
7	chr3:59769200-59770600	Enhancers	Primary T helper cells fromperipheralblood	blood
8	chr3:59769400-59770400	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr3:59769400-59770400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
10	chr3:59769400-59770400	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr3:59769400-59770400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr3:59769400-59770400	Enhancers	Primary T killer memory cells from peripheral blood	blood
13	chr3:59769400-59770400	Enhancers	GM12878-XiMat	blood
14	chr3:59769600-59770400	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr3:59769600-59770400	Enhancers	Primary B cells from peripheral blood	blood
16	chr3:59769600-59770400	Enhancers	Primary hematopoietic stem cells short term culture	blood
17	chr3:59769600-59770400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
18	chr3:59769600-59770400	Enhancers	Primary T helper naive cells from peripheral blood	blood
19	chr3:59769600-59770600	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr3:59769800-59770400	Enhancers	H1 Cell Line	embryonic stem cell
21	chr3:59769800-59770400	Enhancers	H9 Cell Line	embryonic stem cell
22	chr3:59769800-59770400	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr3:59769800-59770400	Enhancers	iPS-15b Cell Line	embryonic stem cell
24	chr3:59769800-59770400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
25	chr3:59769800-59791400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
26	chr3:59770000-59770400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr3:59770000-59770400	Enhancers	Fetal Thymus	thymus
28	chr3:59770000-59770600	Strong transcription	Primary T cells from cord blood	blood
29	chr3:59770000-59779000	Weak transcription	Thymus	Thymus
30	chr3:59770200-59770400	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr3:59770200-59770400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr3:59770200-59775800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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