Variant report

Variant	rs10835174
Chromosome Location	chr11:3853473-3853474
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:3852726-3854044	K562	blood:	n/a	n/a
2	GATA1	chr11:3852529-3853700	K562	blood:	n/a	n/a
3	POLR2A	chr11:3853134-3854126	PANC-1	pancreas:	n/a	n/a
4	RCOR1	chr11:3852908-3853475	K562	blood:	n/a	n/a
5	POLR2A	chr11:3853008-3854121	GM12878	blood:	n/a	n/a
6	POLR2A	chr11:3853416-3854055	Hela-S3	cervix:	n/a	n/a
7	ARID3A	chr11:3852926-3853495	K562	blood:	n/a	n/a
8	POLR2A	chr11:3852548-3853806	GM12878	blood:	n/a	n/a
9	POLR2A	chr11:3853090-3853897	K562	blood:	n/a	n/a
10	JUND	chr11:3852749-3853558	K562	blood:	n/a	n/a
11	POLR2A	chr11:3852069-3854235	K562	blood:	n/a	n/a
12	NR2F2	chr11:3852980-3853550	K562	blood:	n/a	chr11:3853375-3853390
13	POLR2A	chr11:3852687-3855224	GM12878	blood:	n/a	n/a
14	POLR2A	chr11:3851901-3854284	HL-60	blood:	n/a	n/a
15	POLR2A	chr11:3853451-3854184	GM12892	blood:	n/a	n/a
16	BHLHE40	chr11:3852921-3853716	K562	blood:	n/a	n/a
17	POLR2A	chr11:3853129-3853644	GM12892	blood:	n/a	n/a
18	POLR2A	chr11:3851880-3854822	HL-60	blood:	n/a	n/a
19	CBX3	chr11:3852830-3853547	K562	blood:	n/a	n/a
20	POLR2A	chr11:3853446-3854129	GM12892	blood:	n/a	n/a
21	TBL1XR1	chr11:3852782-3853757	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:3853294..3855023-chr11:3877821..3880627,2	K562	blood:

Variant related genes	Relation type
RHOG	TF binding region

Extended variants
information (count: 24 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1055639	0.81[JPT][hapmap]
rs10742177	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10767641	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10835175	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10835177	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10835178	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11030002	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11030008	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12363789	0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1451720	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1451721	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1451722	0.81[CEU][hapmap];0.84[GIH][hapmap]
rs4597058	0.81[JPT][hapmap]
rs962199	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049560	chr11:3678259-3980746	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv540907	chr11:3678259-3980746	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv1052744	chr11:3739162-4017601	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1047025	chr11:3750969-4017601	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	esv1803195	chr11:3806490-3924156	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv1046065	chr11:3808818-4049150	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv540909	chr11:3808818-4049150	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
8	nsv1038220	chr11:3818041-3860024	Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
9	nsv1044882	chr11:3828986-3860024	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
10	nsv1044360	chr11:3832288-3860024	Strong transcription Transcr. at gene 5' and 3' Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:3830600-3861000	Weak transcription	Fetal Kidney	kidney
2	chr11:3842000-3853600	Strong transcription	Fetal Intestine Small	intestine
3	chr11:3844000-3857000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
4	chr11:3844400-3856200	Strong transcription	Fetal Stomach	stomach
5	chr11:3844800-3854800	Strong transcription	Dnd41	blood
6	chr11:3844800-3857000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr11:3845000-3856000	Weak transcription	HUVEC	blood vessel
8	chr11:3845200-3855800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr11:3845400-3854200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr11:3845400-3855000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr11:3845400-3855800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr11:3845600-3855800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr11:3846000-3853800	Strong transcription	A549	lung
14	chr11:3846400-3855000	Strong transcription	NHEK	skin
15	chr11:3848400-3861000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr11:3848600-3858200	Weak transcription	NHDF-Ad	bronchial
17	chr11:3848800-3855400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr11:3849200-3853600	Weak transcription	HepG2	liver
19	chr11:3849200-3855400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr11:3849400-3853600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr11:3849400-3853600	Weak transcription	Colonic Mucosa	Colon
22	chr11:3849400-3855800	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr11:3849400-3855800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr11:3849400-3856000	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr11:3849400-3856000	Weak transcription	Brain Germinal Matrix	brain
26	chr11:3849400-3859000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr11:3849600-3853600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr11:3849600-3855600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr11:3849600-3855600	Weak transcription	Colon Smooth Muscle	Colon
30	chr11:3849600-3855800	Weak transcription	Aorta	Aorta
31	chr11:3849600-3856400	Weak transcription	Ovary	ovary
32	chr11:3849600-3861000	Weak transcription	HSMMtube	muscle
33	chr11:3849800-3854600	Weak transcription	Hela-S3	cervix
34	chr11:3849800-3854800	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr11:3849800-3855400	Weak transcription	Rectal Smooth Muscle	rectum
36	chr11:3849800-3855800	Weak transcription	HUES48 Cell Line	embryonic stem cell
37	chr11:3849800-3856200	Weak transcription	HSMM	muscle
38	chr11:3850200-3855000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr11:3850400-3855600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr11:3850600-3855600	Genic enhancers	Primary T cells fromperipheralblood	blood
41	chr11:3851200-3853800	Strong transcription	Stomach Smooth Muscle	stomach
42	chr11:3851400-3853600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr11:3851400-3853800	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
44	chr11:3851400-3854800	Enhancers	Primary T killer memory cells from peripheral blood	blood
45	chr11:3851400-3855600	Genic enhancers	Primary T cells from cord blood	blood
46	chr11:3851600-3854600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr11:3851600-3854800	Weak transcription	HMEC	breast
48	chr11:3851600-3855600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
49	chr11:3851600-3856000	Weak transcription	NH-A	brain
50	chr11:3851600-3857200	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood

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