Variant report

Variant	rs2041236
Chromosome Location	chr11:16922349-16922350
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10741712	0.89[YRI][hapmap]
rs10741716	0.80[CHB][hapmap];0.84[JPT][hapmap]
rs10766354	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10766355	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10766356	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10832695	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11024074	0.84[JPT][hapmap]
rs11829035	0.88[JPT][hapmap]
rs177542	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs177543	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2215085	0.80[CEU][hapmap];0.87[CHB][hapmap];0.84[CHD][hapmap];0.80[GIH][hapmap];0.84[JPT][hapmap]
rs365215	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs370161	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.98[TSI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs371303	0.90[YRI][hapmap]
rs373789	0.92[ASN][1000 genomes]
rs378755	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.84[MEX][hapmap];0.92[MKK][hapmap];0.98[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs379765	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs382734	0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs384735	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs385228	0.92[ASN][1000 genomes]
rs392500	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs392509	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs393625	0.92[YRI][hapmap]
rs402838	0.89[YRI][hapmap]
rs402973	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.98[TSI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs415300	0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs416258	0.89[JPT][hapmap]
rs426144	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs428120	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs432373	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs433660	0.92[ASN][1000 genomes]
rs439036	0.92[ASN][1000 genomes]
rs442389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs450954	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4756878	0.80[CHB][hapmap];0.84[JPT][hapmap]
rs4757444	0.80[CEU][hapmap];0.87[CHB][hapmap];0.84[JPT][hapmap]
rs4757446	0.80[CEU][hapmap];0.87[CHB][hapmap];0.84[CHD][hapmap];0.80[GIH][hapmap];0.84[JPT][hapmap]
rs55646909	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7117745	0.80[CEU][hapmap];0.87[CHB][hapmap];0.84[JPT][hapmap]
rs7121911	0.80[CHB][hapmap];0.84[JPT][hapmap]
rs7128212	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7481080	0.87[CEU][hapmap]
rs7931794	0.80[CHB][hapmap];0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832077	chr11:16834545-17059176	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv7688	chr11:16912759-16939804	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv2757425	chr11:16915291-16934130	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	esv2759805	chr11:16915291-16934130	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv1038987	chr11:16916438-16927022	Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv2754709	chr11:16917219-16927022	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2041236	TEAD1	cis	parietal	SCAN

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16912200-16923600	Weak transcription	A549	lung
2	chr11:16914000-16927400	Weak transcription	HSMMtube	muscle
3	chr11:16915800-16922800	Weak transcription	HMEC	breast
4	chr11:16916000-16923000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr11:16916000-16924400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr11:16916000-16931000	Weak transcription	Spleen	Spleen
7	chr11:16918200-16922400	Enhancers	Fetal Intestine Large	intestine
8	chr11:16918200-16924800	Weak transcription	Colonic Mucosa	Colon
9	chr11:16919400-16922400	Enhancers	Fetal Intestine Small	intestine
10	chr11:16919400-16927000	Weak transcription	Fetal Muscle Leg	muscle
11	chr11:16919600-16923200	Weak transcription	Primary B cells from peripheral blood	blood
12	chr11:16919600-16924200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr11:16919600-16925400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr11:16919800-16933600	Weak transcription	Fetal Kidney	kidney
15	chr11:16920000-16924200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr11:16920000-16924400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr11:16920200-16924200	Weak transcription	Adipose Nuclei	Adipose
18	chr11:16920400-16923000	Weak transcription	GM12878-XiMat	blood
19	chr11:16920400-16923200	Weak transcription	Small Intestine	intestine
20	chr11:16920400-16923600	Weak transcription	HUVEC	blood vessel
21	chr11:16920400-16924600	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr11:16920400-16927000	Weak transcription	Right Atrium	heart
23	chr11:16921200-16922600	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr11:16921600-16927000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr11:16921600-16927200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr11:16921800-16924800	Weak transcription	Left Ventricle	heart
27	chr11:16921800-16926600	Weak transcription	Gastric	stomach
28	chr11:16921800-16926600	Weak transcription	Pancreas	Pancrea
29	chr11:16921800-16927000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr11:16922000-16922400	Enhancers	Fetal Heart	heart
31	chr11:16922000-16923000	Weak transcription	Duodenum Mucosa	Duodenum
32	chr11:16922000-16923400	Weak transcription	Stomach Mucosa	stomach
33	chr11:16922000-16923600	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr11:16922000-16934000	Weak transcription	HepG2	liver
35	chr11:16922200-16927200	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links