Variant report

Variant	rs10199548
Chromosome Location	chr2:100424095-100424096
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	chr2:100337048..100339070-chr2:100424064..100425617,2	MCF-7	breast:
2	chr2:100414983..100419771-chr2:100422906..100426417,4	MCF-7	breast:

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10175788	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10182690	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10191077	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10194527	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10198310	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10204617	0.93[ASN][1000 genomes]
rs10496340	0.91[ASN][1000 genomes]
rs10865032	0.90[ASN][1000 genomes]
rs10865033	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10865034	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11123796	0.91[ASN][1000 genomes]
rs11123801	0.81[EUR][1000 genomes]
rs12478013	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12712060	0.88[ASN][1000 genomes]
rs13416974	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13423929	0.87[EUR][1000 genomes]
rs13428668	0.86[AMR][1000 genomes]
rs1344701	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1344702	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1346621	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1366761	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1366763	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1366766	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1404176	0.80[AMR][1000 genomes]
rs1429268	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1429269	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1568786	0.99[ASN][1000 genomes]
rs1594111	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1594113	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1608640	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2043006	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2091150	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2115600	0.91[ASN][1000 genomes]
rs2115601	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2163044	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2309650	0.93[ASN][1000 genomes]
rs2871310	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3863006	0.80[AMR][1000 genomes]
rs4286327	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4481043	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4521099	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4850916	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4851229	0.86[AMR][1000 genomes]
rs4851231	0.89[ASN][1000 genomes]
rs4851232	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4851234	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4851235	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62147565	0.93[ASN][1000 genomes]
rs6542890	0.86[AMR][1000 genomes]
rs6542900	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6542901	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6542902	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6542903	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6705966	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6721652	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6723474	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6725716	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6732358	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6743473	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6744510	0.82[AMR][1000 genomes]
rs6747845	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6756821	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7560078	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7562121	0.87[ASN][1000 genomes]
rs7565155	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7566083	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7573572	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7586604	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7596023	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7604536	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9308829	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9967704	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431424	chr2:99652682-100494682	Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv1003343	chr2:100241560-100848900	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv535843	chr2:100241560-100848900	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv2757820	chr2:100380891-100546675	Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv2759078	chr2:100380891-100546675	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1010971	chr2:100387986-100431935	Weak transcription ZNF genes & repeats Strong transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv2845	chr2:100421826-100466558	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100418200-100429400	Weak transcription	Fetal Lung	lung
2	chr2:100420400-100439400	Weak transcription	Fetal Brain Female	brain
3	chr2:100420800-100424200	Enhancers	NHDF-Ad	bronchial
4	chr2:100420800-100431800	Strong transcription	Primary B cells from cord blood	blood
5	chr2:100421000-100427600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr2:100421800-100426800	Enhancers	Osteobl	bone
7	chr2:100422000-100424200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr2:100422200-100424400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr2:100422200-100424600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr2:100422600-100424600	Enhancers	NH-A	brain
11	chr2:100422800-100424200	Strong transcription	Primary T cells from cord blood	blood
12	chr2:100423200-100424600	Strong transcription	Primary B cells from peripheral blood	blood
13	chr2:100423600-100426800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr2:100423600-100454600	Weak transcription	Lung	lung
15	chr2:100423800-100425800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr2:100423800-100428000	Weak transcription	Fetal Heart	heart
17	chr2:100423800-100434600	Weak transcription	Fetal Brain Male	brain
18	chr2:100424000-100425600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr2:100424000-100427200	Weak transcription	Primary hematopoietic stem cells	blood
20	chr2:100424000-100428000	Weak transcription	HSMM	muscle
21	chr2:100424000-100443000	Weak transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links