Variant report

Variant	rs3897548
Chromosome Location	chr11:73968836-73968837
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	chr11:73962370..73964549-chr11:73967148..73969915,2	MCF-7	breast:
2	chr11:73675181..73677291-chr11:73967062..73968941,2	K562	blood:

Variant related genes	Relation type
ENSG00000255847	Chromatin interaction
ENSG00000187726	Chromatin interaction
ENSG00000206913	Chromatin interaction

Extended variants
information (count: 136 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:131)

rs_ID	r²[population]
rs10488770	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs10488771	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10501413	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10501414	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1055178	0.86[ASN][1000 genomes]
rs11823967	1.00[CEU][hapmap]
rs12277116	0.86[ASN][1000 genomes]
rs12277407	0.86[ASN][1000 genomes]
rs12291090	1.00[ASN][1000 genomes]
rs12295243	0.86[ASN][1000 genomes]
rs12421228	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12794753	1.00[ASN][1000 genomes]
rs17132610	0.86[ASN][1000 genomes]
rs17132620	0.86[ASN][1000 genomes]
rs17132629	0.86[ASN][1000 genomes]
rs17132721	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132796	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132801	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132816	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132818	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132826	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132836	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132837	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132846	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132855	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132864	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132870	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132873	1.00[GIH][hapmap]
rs17132881	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs17132882	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs17132891	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132911	1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[ASN][1000 genomes]
rs17132914	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132921	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132931	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132947	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132965	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17132991	1.00[JPT][hapmap];1.00[MEX][hapmap]
rs17133043	1.00[JPT][hapmap]
rs17160052	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1790392	0.86[ASN][1000 genomes]
rs1790393	1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2154971	1.00[ASN][1000 genomes]
rs2186561	1.00[ASN][1000 genomes]
rs2272321	0.86[ASN][1000 genomes]
rs34895949	1.00[ASN][1000 genomes]
rs4121666	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs41349744	1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4489773	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs4575301	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs512641	1.00[JPT][hapmap]
rs520523	1.00[CEU][hapmap]
rs528900	1.00[CEU][hapmap]
rs531902	1.00[CEU][hapmap]
rs55793503	0.86[ASN][1000 genomes]
rs55814391	1.00[ASN][1000 genomes]
rs560814	1.00[CEU][hapmap]
rs56142225	1.00[ASN][1000 genomes]
rs56171120	1.00[ASN][1000 genomes]
rs56295430	0.86[ASN][1000 genomes]
rs56343229	1.00[ASN][1000 genomes]
rs56808069	1.00[ASN][1000 genomes]
rs56984031	1.00[ASN][1000 genomes]
rs57115412	1.00[ASN][1000 genomes]
rs57384187	1.00[ASN][1000 genomes]
rs57393325	1.00[ASN][1000 genomes]
rs57642592	1.00[ASN][1000 genomes]
rs58102808	1.00[ASN][1000 genomes]
rs58421256	1.00[ASN][1000 genomes]
rs58727177	0.86[ASN][1000 genomes]
rs58898896	1.00[ASN][1000 genomes]
rs600145	1.00[CEU][hapmap]
rs60044681	1.00[ASN][1000 genomes]
rs60206858	1.00[ASN][1000 genomes]
rs60218608	1.00[ASN][1000 genomes]
rs60219367	1.00[ASN][1000 genomes]
rs60636561	0.86[ASN][1000 genomes]
rs60759798	0.86[ASN][1000 genomes]
rs60981452	1.00[ASN][1000 genomes]
rs61132076	1.00[ASN][1000 genomes]
rs644421	1.00[CEU][hapmap]
rs6592549	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6592550	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs670974	1.00[CEU][hapmap]
rs7106817	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7107268	1.00[ASN][1000 genomes]
rs7110062	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7113898	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7126696	1.00[ASN][1000 genomes]
rs7127358	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs7129659	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs7129774	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs73549014	1.00[ASN][1000 genomes]
rs73549059	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73549071	1.00[ASN][1000 genomes]
rs73550730	1.00[ASN][1000 genomes]
rs73550751	1.00[ASN][1000 genomes]
rs73550754	1.00[ASN][1000 genomes]
rs73550755	1.00[ASN][1000 genomes]
rs73550761	1.00[ASN][1000 genomes]
rs73550769	0.86[ASN][1000 genomes]
rs73550772	1.00[ASN][1000 genomes]
rs73555974	0.86[ASN][1000 genomes]
rs73555986	0.86[ASN][1000 genomes]
rs73557906	0.86[ASN][1000 genomes]
rs73561882	1.00[ASN][1000 genomes]
rs73561885	1.00[ASN][1000 genomes]
rs73565826	1.00[ASN][1000 genomes]
rs73565828	1.00[ASN][1000 genomes]
rs73565829	1.00[ASN][1000 genomes]
rs73565839	1.00[ASN][1000 genomes]
rs73565840	1.00[ASN][1000 genomes]
rs73565842	1.00[ASN][1000 genomes]
rs7924965	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs7925320	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7925695	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7926891	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7943916	1.00[ASN][1000 genomes]
rs7947458	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs826048	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs826059	0.86[ASN][1000 genomes]
rs826063	1.00[GIH][hapmap]
rs826065	1.00[GIH][hapmap]
rs826068	0.86[ASN][1000 genomes]
rs826069	0.86[ASN][1000 genomes]
rs826071	0.86[ASN][1000 genomes]
rs826072	0.86[ASN][1000 genomes]
rs826073	0.86[ASN][1000 genomes]
rs826075	0.86[ASN][1000 genomes]
rs826085	0.86[ASN][1000 genomes]
rs947840	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[ASN][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	esv2757451	chr11:73842609-74545888	Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	esv2759837	chr11:73842609-74557597	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
3	esv34979	chr11:73878688-74533452	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	esv2758277	chr11:73887567-74557597	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
5	nsv825994	chr11:73936667-74534455	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers 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	83 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:73907400-73969200	Weak transcription	HUVEC	blood vessel
2	chr11:73961000-73969600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr11:73962000-73969200	Weak transcription	Fetal Kidney	kidney
4	chr11:73963000-73969600	Weak transcription	K562	blood
5	chr11:73965000-73970200	Weak transcription	Small Intestine	intestine
6	chr11:73965600-73969000	Weak transcription	NHDF-Ad	bronchial
7	chr11:73965800-73969200	Weak transcription	Pancreas	Pancrea
8	chr11:73965800-73970000	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr11:73966000-73969000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr11:73966000-73969000	Weak transcription	Ovary	ovary
11	chr11:73966000-73969400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr11:73966000-73971800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr11:73966000-73972000	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr11:73966200-73969400	Weak transcription	Primary B cells from peripheral blood	blood
15	chr11:73966200-73969400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr11:73966200-73969400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr11:73966200-73969400	Weak transcription	Brain Substantia Nigra	brain
18	chr11:73966200-73970600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr11:73966200-73971400	Weak transcription	NHEK	skin
20	chr11:73966200-73980000	Weak transcription	Gastric	stomach
21	chr11:73966400-73969000	Weak transcription	Left Ventricle	heart
22	chr11:73966400-73969200	Weak transcription	Primary B cells from cord blood	blood
23	chr11:73966400-73969200	Weak transcription	Brain Angular Gyrus	brain
24	chr11:73966400-73969200	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr11:73966400-73979200	Weak transcription	Primary T cells from cord blood	blood
26	chr11:73966600-73969000	Weak transcription	Brain Anterior Caudate	brain
27	chr11:73966600-73969000	Weak transcription	Brain Cingulate Gyrus	brain
28	chr11:73966600-73969000	Weak transcription	Brain Hippocampus Middle	brain
29	chr11:73966600-73969000	Weak transcription	Fetal Brain Female	brain
30	chr11:73966600-73969200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr11:73966600-73969200	Weak transcription	Right Ventricle	heart
32	chr11:73966600-73969400	Weak transcription	Fetal Intestine Small	intestine
33	chr11:73966600-73969600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr11:73966600-73969600	Weak transcription	Placenta	Placenta
35	chr11:73966600-73969600	Weak transcription	GM12878-XiMat	blood
36	chr11:73966600-73969800	Enhancers	Colon Smooth Muscle	Colon
37	chr11:73966600-73970600	Weak transcription	Thymus	Thymus
38	chr11:73966600-73972000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr11:73966800-73969200	Weak transcription	NHLF	lung
40	chr11:73966800-73971000	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr11:73967000-73969600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr11:73967000-73971800	Weak transcription	Liver	Liver
43	chr11:73967200-73970000	Enhancers	Hela-S3	cervix
44	chr11:73967600-73969000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr11:73967600-73969200	Weak transcription	Rectal Smooth Muscle	rectum
46	chr11:73967600-73970600	Weak transcription	Fetal Thymus	thymus
47	chr11:73967800-73969000	Weak transcription	Adipose Nuclei	Adipose
48	chr11:73967800-73969200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr11:73967800-73969200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr11:73967800-73970200	Weak transcription	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links