Variant report

Variant	rs72856128
Chromosome Location	chr11:10429084-10429085
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr11:10427209-10429313	SK-N-SH	brain:	n/a	chr11:10428417-10428426 chr11:10427808-10427816
2	RAD21	chr11:10426934-10429717	SK-N-SH	brain:	n/a	chr11:10427853-10427862 chr11:10427853-10427865 chr11:10427852-10427865 chr11:10427849-10427868 chr11:10427271-10427280
3	FOXA1	chr11:10428481-10429105	A549	lung:	n/a	n/a
4	TCF12	chr11:10428437-10429347	SK-N-SH	brain:	n/a	n/a
5	EP300	chr11:10428492-10429107	SK-N-SH_RA	brain:	n/a	n/a
6	NR3C1	chr11:10428535-10429165	A549	lung:	n/a	n/a
7	EP300	chr11:10428418-10429225	SK-N-SH	brain:	n/a	n/a
8	GATA3	chr11:10428396-10429266	SK-N-SH	brain:	n/a	n/a
9	TCF12	chr11:10428398-10429163	A549	lung:	n/a	n/a
10	GATA3	chr11:10428338-10429198	SK-N-SH	brain:	n/a	n/a
11	MAX	chr11:10428407-10429138	A549	lung:	n/a	n/a
12	FOSL2	chr11:10428396-10429162	A549	lung:	n/a	n/a
13	GATA3	chr11:10428286-10429134	A549	lung:	n/a	n/a
14	PBX3	chr11:10428461-10429298	SK-N-SH	brain:	n/a	n/a
15	NR3C1	chr11:10428532-10429124	A549	lung:	n/a	n/a
16	FOSL2	chr11:10428519-10429141	SK-N-SH	brain:	n/a	n/a
17	NR3C1	chr11:10428576-10429084	A549	lung:	n/a	n/a
18	POLR2A	chr11:10428574-10429166	SK-N-SH	brain:	n/a	n/a
19	NR3C1	chr11:10428602-10429085	A549	lung:	n/a	n/a
20	EP300	chr11:10428590-10429185	SK-N-SH_RA	brain:	n/a	n/a
21	TEAD4	chr11:10428550-10429108	SK-N-SH	brain:	n/a	n/a
22	TCF12	chr11:10428388-10429335	SK-N-SH	brain:	n/a	n/a
23	SP1	chr11:10428432-10429091	A549	lung:	n/a	n/a
24	FOSL1	chr11:10428274-10429121	HCT-116	colon:	n/a	n/a
25	NR3C1	chr11:10428536-10429142	A549	lung:	n/a	n/a
26	FOXA2	chr11:10428515-10429151	A549	lung:	n/a	n/a
27	FOS	chr11:10428499-10429294	HUVEC	blood vessel:	n/a	chr11:10428772-10428783
28	JUND	chr11:10428477-10429189	SK-N-SH	brain:	n/a	chr11:10428772-10428783
29	PBX3	chr11:10428536-10429170	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:10428535..10430173-chr11:10471249..10473167,2	MCF-7	breast:
2	chr11:10427808..10432250-chr11:10475440..10478017,5	K562	blood:

Variant related genes	Relation type
AMPD3	TF binding region
ENSG00000133805	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10840411	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11042786	0.91[ASN][1000 genomes]
rs11042791	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11042792	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13377303	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3741045	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57259436	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60391641	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60628971	0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs61616419	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61890317	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61890319	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61890322	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61890323	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61890325	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6484256	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6484260	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs67457110	0.91[ASN][1000 genomes]
rs72856156	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72856184	0.81[AMR][1000 genomes]
rs7481363	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs763470	0.94[AFR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv1037131	chr11:10401998-10429998	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv553477	chr11:10403539-10429998	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10415600-10436000	Weak transcription	Right Ventricle	heart
2	chr11:10420400-10429400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr11:10422200-10430800	Weak transcription	Colon Smooth Muscle	Colon
4	chr11:10423000-10430400	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr11:10423000-10430600	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr11:10423200-10429200	Weak transcription	Lung	lung
7	chr11:10423800-10430600	Weak transcription	Brain Angular Gyrus	brain
8	chr11:10427200-10431000	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr11:10427200-10431200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr11:10427200-10432600	Enhancers	Skeletal Muscle Male	skeletal muscle
11	chr11:10427400-10429200	Enhancers	Osteobl	bone
12	chr11:10427400-10429400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr11:10427400-10429800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr11:10427400-10431200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr11:10427400-10431400	Enhancers	Muscle Satellite Cultured Cells	--
16	chr11:10427400-10432400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr11:10427400-10432800	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr11:10427600-10429200	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr11:10427600-10429200	Weak transcription	Spleen	Spleen
20	chr11:10427600-10429600	Enhancers	HUVEC	blood vessel
21	chr11:10427600-10429800	Enhancers	NHEK	skin
22	chr11:10427600-10430600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr11:10427600-10432800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr11:10427800-10429400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr11:10427800-10429600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr11:10427800-10429600	Enhancers	K562	blood
27	chr11:10427800-10429600	Enhancers	Monocytes-CD14+_RO01746	blood
28	chr11:10427800-10429800	Enhancers	HMEC	breast
29	chr11:10427800-10430800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr11:10427800-10435000	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr11:10427800-10435200	Weak transcription	Brain Hippocampus Middle	brain
32	chr11:10427800-10436000	Weak transcription	HSMMtube	muscle
33	chr11:10428000-10429200	Weak transcription	Pancreas	Pancrea
34	chr11:10428000-10429200	Enhancers	HSMM	muscle
35	chr11:10428000-10429400	Weak transcription	Fetal Thymus	thymus
36	chr11:10428000-10429400	Weak transcription	Ovary	ovary
37	chr11:10428000-10429600	Enhancers	Primary hematopoietic stem cells	blood
38	chr11:10428000-10430200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr11:10428000-10431000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr11:10428200-10429200	Enhancers	Pancreatic Islets	Pancreatic Islet
41	chr11:10428200-10429200	Enhancers	Hela-S3	cervix
42	chr11:10428200-10429800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr11:10428200-10430800	Weak transcription	Primary B cells from peripheral blood	blood
44	chr11:10428200-10435200	Weak transcription	Dnd41	blood
45	chr11:10428400-10429200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr11:10428600-10429200	Enhancers	Brain Anterior Caudate	brain
47	chr11:10428600-10430000	Enhancers	Right Atrium	heart
48	chr11:10428600-10431200	Enhancers	Fetal Brain Male	brain
49	chr11:10428800-10429600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr11:10428800-10429600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links