Variant report

Variant	rs2899209
Chromosome Location	chr22:33915503-33915504
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	chr22:33915114..33915817-chr22:33975164..33976137,2	MCF-7	breast:
2	chr22:33914896..33915863-chr22:33975082..33976024,7	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11704444	0.81[JPT][hapmap]
rs11704460	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs1540299	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1807492	0.87[CEU][hapmap];0.87[CHB][hapmap];0.81[ASN][1000 genomes]
rs2267221	0.89[CEU][hapmap];0.91[CHB][hapmap]
rs2267222	0.89[CEU][hapmap];0.91[CHB][hapmap]
rs2267223	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2267225	0.96[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs2267226	0.95[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2267227	0.96[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs4820107	0.82[JPT][hapmap]
rs4821157	0.96[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs4821158	0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs5749623	0.91[CHB][hapmap]
rs5749624	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs5754581	0.96[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs5754585	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs5754587	0.81[ASN][1000 genomes]
rs5754588	0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs5754589	0.95[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs5754590	1.00[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs5754591	0.91[ASN][1000 genomes]
rs5754592	0.95[CHB][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs5754594	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs5754596	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs5754601	0.81[JPT][hapmap]
rs5998999	0.95[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7289066	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:27 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948523	chr22:33414164-34098417	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
2	nsv934109	chr22:33722066-34339500	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1062127	chr22:33755479-34085278	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
4	nsv544683	chr22:33755479-34085278	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
5	nsv531588	chr22:33776857-34150188	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
6	nsv914983	chr22:33800119-34035034	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1060283	chr22:33809137-34043739	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
8	nsv544684	chr22:33809137-34043739	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1057547	chr22:33810445-33939474	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
10	nsv1055791	chr22:33822226-34159536	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
11	nsv1065417	chr22:33823850-34053325	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
12	nsv933309	chr22:33825232-34053000	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
13	esv2763261	chr22:33831348-34288389	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
14	nsv1063275	chr22:33847076-33934464	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	nsv917167	chr22:33852676-34137036	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
16	esv2751963	chr22:33855512-33935897	Flanking Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	nsv1065776	chr22:33860774-33934464	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
18	nsv1062832	chr22:33861531-34143295	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
19	nsv544686	chr22:33861531-34143295	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
20	nsv1064943	chr22:33862239-33934464	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
21	nsv1063011	chr22:33863218-33934464	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
22	nsv914986	chr22:33863218-33967289	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
23	nsv1067480	chr22:33865381-33934464	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
24	nsv459877	chr22:33866854-33932624	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
25	nsv588932	chr22:33866854-33932624	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
26	nsv1066694	chr22:33868123-33928973	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
27	nsv544687	chr22:33868123-33928973	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:33905400-33917200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr22:33906400-33935800	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr22:33906600-33920000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr22:33908600-33917000	Enhancers	HepG2	liver
5	chr22:33909400-33915600	Weak transcription	Fetal Kidney	kidney
6	chr22:33909400-33917000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr22:33909400-33920800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr22:33909600-33917000	Weak transcription	Aorta	Aorta
9	chr22:33909800-33917200	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr22:33909800-33920800	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr22:33910000-33917200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr22:33910000-33920800	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr22:33911000-33915800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr22:33912000-33916400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr22:33912000-33921200	Weak transcription	Pancreas	Pancrea
16	chr22:33912400-33916200	Weak transcription	Left Ventricle	heart
17	chr22:33912400-33917200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr22:33914400-33915800	Enhancers	Fetal Stomach	stomach
19	chr22:33914600-33915800	Enhancers	Fetal Brain Female	brain
20	chr22:33914600-33916600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr22:33914600-33916600	Enhancers	A549	lung
22	chr22:33914600-33917200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr22:33914800-33915600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr22:33914800-33915800	Enhancers	Colon Smooth Muscle	Colon
25	chr22:33915000-33915600	Enhancers	Osteobl	bone
26	chr22:33915000-33915800	Enhancers	Brain Hippocampus Middle	brain
27	chr22:33915000-33915800	Enhancers	Fetal Brain Male	brain
28	chr22:33915000-33915800	Enhancers	Fetal Heart	heart
29	chr22:33915000-33916600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr22:33915000-33916600	Enhancers	Fetal Intestine Large	intestine
31	chr22:33915000-33916600	Enhancers	Fetal Intestine Small	intestine
32	chr22:33915000-33916800	Enhancers	GM12878-XiMat	blood
33	chr22:33915000-33921000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr22:33915000-33921200	Enhancers	Primary B cells from peripheral blood	blood
35	chr22:33915200-33915600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr22:33915200-33915600	Enhancers	Primary B cells from cord blood	blood
37	chr22:33915200-33915600	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr22:33915200-33915600	Enhancers	Stomach Mucosa	stomach
39	chr22:33915200-33915800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr22:33915200-33915800	Enhancers	Breast Myoepithelial Primary Cells	Breast
41	chr22:33915200-33915800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr22:33915200-33915800	Enhancers	Brain Cingulate Gyrus	brain
43	chr22:33915200-33915800	Enhancers	Fetal Lung	lung
44	chr22:33915200-33916000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr22:33915200-33916000	Enhancers	Primary hematopoietic stem cells	blood
46	chr22:33915200-33916000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr22:33915200-33916000	Enhancers	Cortex derived primary cultured neurospheres	brain
48	chr22:33915200-33916200	Enhancers	Fetal Muscle Trunk	muscle
49	chr22:33915200-33916600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr22:33915200-33918600	Enhancers	Liver	Liver

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