Variant report

Variant	rs441196
Chromosome Location	chr2:40405294-40405295
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs105288	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs118899	0.96[ASN][1000 genomes]
rs1641456	0.91[ASN][1000 genomes]
rs1641457	0.91[ASN][1000 genomes]
rs1641458	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1651355	0.91[ASN][1000 genomes]
rs28628343	0.93[ASN][1000 genomes]
rs35487690	0.89[ASN][1000 genomes]
rs366578	1.00[JPT][hapmap]
rs368642	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs369140	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs371909	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs372052	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs373602	0.96[ASN][1000 genomes]
rs373606	1.00[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs374711	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3749056	1.00[JPT][hapmap]
rs375180	0.92[ASN][1000 genomes]
rs376170	0.91[ASN][1000 genomes]
rs376491	0.85[ASN][1000 genomes]
rs379410	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs380082	1.00[JPT][hapmap]
rs380975	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs384511	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs384791	0.91[ASN][1000 genomes]
rs384994	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs385561	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs389109	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs389992	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs391631	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs391984	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs393711	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs394112	1.00[JPT][hapmap]
rs394540	1.00[JPT][hapmap]
rs399061	0.85[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs401815	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs402307	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs405884	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs406222	1.00[JPT][hapmap]
rs406880	1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs407267	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs407388	1.00[JPT][hapmap]
rs407889	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs408009	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs408662	0.89[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs410031	0.87[ASN][1000 genomes]
rs410480	0.89[ASN][1000 genomes]
rs413711	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs414766	0.87[ASN][1000 genomes]
rs415695	1.00[JPT][hapmap]
rs417464	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs417591	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs417873	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs418380	0.91[ASN][1000 genomes]
rs418780	1.00[CHB][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs421870	1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs422411	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs423075	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs426295	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs427632	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs428738	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs430314	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs430473	0.88[ASN][1000 genomes]
rs432769	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs434082	1.00[JPT][hapmap]
rs434326	0.91[ASN][1000 genomes]
rs436010	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs439960	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs440155	1.00[JPT][hapmap]
rs441413	1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs441593	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs441802	0.88[ASN][1000 genomes]
rs442586	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs443236	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs450116	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs450823	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs451074	1.00[CHB][hapmap];0.81[JPT][hapmap];0.80[YRI][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs451158	1.00[JPT][hapmap]
rs451811	1.00[JPT][hapmap]
rs452138	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs505473	1.00[JPT][hapmap]
rs581477	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs581568	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs615449	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs666362	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs678107	1.00[JPT][hapmap]
rs679339	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs688673	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[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	nsv529606	chr2:40206280-40896881	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv873902	chr2:40231282-40466268	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1004092	chr2:40264608-40451701	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1000572	chr2:40271958-40458911	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv535654	chr2:40271958-40458911	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv581502	chr2:40273903-40459645	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv873904	chr2:40292289-40466268	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv873910	chr2:40391907-40466268	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	esv1851152	chr2:40393223-40512023	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	esv3363273	chr2:40405031-40405471	Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:40357800-40406400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr2:40392000-40413200	Weak transcription	Fetal Brain Female	brain
3	chr2:40393000-40420000	Weak transcription	Fetal Kidney	kidney
4	chr2:40393600-40416800	Weak transcription	Fetal Stomach	stomach
5	chr2:40394200-40406800	Weak transcription	Colon Smooth Muscle	Colon
6	chr2:40396400-40405400	Weak transcription	Duodenum Mucosa	Duodenum
7	chr2:40398400-40406200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr2:40400600-40426800	Weak transcription	Osteobl	bone
9	chr2:40401000-40405400	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr2:40402200-40407400	Enhancers	Fetal Heart	heart
11	chr2:40404400-40406600	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr2:40404600-40405400	Genic enhancers	Primary monocytes fromperipheralblood	blood
13	chr2:40404600-40405800	Genic enhancers	HSMM	muscle
14	chr2:40404800-40405400	Strong transcription	Stomach Smooth Muscle	stomach
15	chr2:40404800-40405600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr2:40404800-40405600	Genic enhancers	Right Ventricle	heart
17	chr2:40404800-40405600	Genic enhancers	Dnd41	blood
18	chr2:40404800-40407200	Enhancers	Fetal Thymus	thymus
19	chr2:40405000-40405400	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr2:40405000-40406200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr2:40405200-40405400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr2:40405200-40405600	Genic enhancers	Left Ventricle	heart
23	chr2:40405200-40406200	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr2:40405200-40407200	Enhancers	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links