Variant report

Variant	rs72857989
Chromosome Location	chr11:9180248-9180249
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10840170	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840171	1.00[ASN][1000 genomes]
rs10840186	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042179	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042190	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042191	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042192	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042196	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11042197	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042201	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042215	0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11042224	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11042228	0.93[AFR][1000 genomes]
rs11042231	0.91[AFR][1000 genomes]
rs11042232	0.87[AFR][1000 genomes]
rs11042241	0.89[AFR][1000 genomes]
rs11042246	0.89[AFR][1000 genomes]
rs11607384	1.00[ASN][1000 genomes]
rs11827186	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12360767	0.81[EUR][1000 genomes]
rs12363839	0.91[AFR][1000 genomes]
rs12366113	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1909215	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2133215	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2173406	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910443	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55948618	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57514354	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6486204	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6486209	0.85[AMR][1000 genomes]
rs67988043	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7113467	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7114013	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7129049	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72857949	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72857991	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72857993	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72857997	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72859678	0.80[AFR][1000 genomes]
rs72859693	0.91[AFR][1000 genomes]
rs7394454	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7396130	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7396541	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7396840	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7945759	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7949022	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7949349	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3413845	chr11:8887279-9285127	Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv33264	chr11:9007612-9311131	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1040049	chr11:9152536-9363488	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv526778	chr11:9159739-9185077	Weak transcription Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9155000-9203400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:9158000-9183200	Strong transcription	Primary neutrophils fromperipheralblood	blood
3	chr11:9159800-9183400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr11:9161200-9202400	Weak transcription	Small Intestine	intestine
5	chr11:9161400-9181000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr11:9162000-9191200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr11:9162000-9230600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr11:9166000-9200600	Weak transcription	Colonic Mucosa	Colon
9	chr11:9167800-9187600	Strong transcription	Placenta	Placenta
10	chr11:9169200-9198400	Weak transcription	Thymus	Thymus
11	chr11:9169400-9186400	Weak transcription	Fetal Intestine Small	intestine
12	chr11:9169600-9238000	Weak transcription	Esophagus	oesophagus
13	chr11:9171000-9182000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr11:9171600-9181800	Weak transcription	Fetal Brain Male	brain
15	chr11:9171800-9180400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr11:9171800-9191400	Weak transcription	Psoas Muscle	Psoas
17	chr11:9171800-9230200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr11:9172000-9181400	Weak transcription	Colon Smooth Muscle	Colon
19	chr11:9172000-9230400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr11:9172200-9197800	Weak transcription	Rectal Smooth Muscle	rectum
21	chr11:9172200-9199600	Weak transcription	Gastric	stomach
22	chr11:9172400-9182000	Weak transcription	Duodenum Mucosa	Duodenum
23	chr11:9172600-9180400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr11:9173000-9199400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr11:9173400-9182200	Weak transcription	Spleen	Spleen
26	chr11:9173400-9191000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr11:9173400-9199600	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr11:9173600-9180400	Weak transcription	HMEC	breast
29	chr11:9173600-9199600	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr11:9173800-9181400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr11:9174000-9180400	Weak transcription	Fetal Intestine Large	intestine
32	chr11:9174000-9181200	Weak transcription	H1 Cell Line	embryonic stem cell
33	chr11:9174000-9181400	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr11:9174000-9181400	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr11:9174000-9181400	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr11:9174000-9182000	Weak transcription	Right Ventricle	heart
37	chr11:9174000-9182200	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr11:9174000-9182200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr11:9174000-9184000	Weak transcription	Fetal Thymus	thymus
40	chr11:9174000-9184600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr11:9174000-9184600	Weak transcription	Brain Substantia Nigra	brain
42	chr11:9174000-9194800	Weak transcription	Fetal Kidney	kidney
43	chr11:9174000-9198200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr11:9174000-9199400	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr11:9174000-9225800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr11:9174200-9180400	Weak transcription	NHEK	skin
47	chr11:9174200-9180600	Weak transcription	Stomach Smooth Muscle	stomach
48	chr11:9174200-9181200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
49	chr11:9174200-9181800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr11:9174200-9181800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links