Variant report

Variant	rs924859
Chromosome Location	chr11:107728430-107728431
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10431032	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10789638	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10890766	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10890767	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10890768	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10890769	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10890770	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11212405	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11212408	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11212410	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11212411	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11212414	0.85[ASN][1000 genomes]
rs11212416	0.85[ASN][1000 genomes]
rs11212419	0.85[ASN][1000 genomes]
rs11603925	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11603959	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11607450	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12221840	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12278174	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12417231	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12418609	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3741065	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4466794	0.85[ASN][1000 genomes]
rs4587695	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4753819	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4753821	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4754264	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4754265	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4754267	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4754268	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4754270	0.85[ASN][1000 genomes]
rs55669117	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56139321	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56218864	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58034440	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61906861	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7102437	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7104117	0.85[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7109214	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7121733	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs73007259	0.85[ASN][1000 genomes]
rs7941501	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7946548	0.85[ASN][1000 genomes]
rs7949443	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs924860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533794	chr11:107349817-108093259	Bivalent Enhancer Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv1039425	chr11:107468681-107895836	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv427899	chr11:107471544-107805894	Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv1049524	chr11:107540937-107954011	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv1038581	chr11:107564274-107838386	Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv898378	chr11:107580985-107847983	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	12 gene(s)	inside rSNPs	diseases
7	nsv521771	chr11:107590335-107904646	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	18 gene(s)	inside rSNPs	diseases
8	nsv1048938	chr11:107604473-107929950	Flanking Active TSS Active TSS Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	18 gene(s)	inside rSNPs	diseases
9	nsv1045388	chr11:107686808-107733498	Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	esv2750980	chr11:107720941-107970986	Weak transcription Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
11	nsv1043139	chr11:107725297-107869216	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:107712600-107728600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr11:107719600-107728800	Weak transcription	Small Intestine	intestine
3	chr11:107727000-107728600	Enhancers	Primary T cells fromperipheralblood	blood
4	chr11:107727200-107728600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr11:107727200-107729000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr11:107727200-107729000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr11:107727600-107728600	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
8	chr11:107727600-107728600	Enhancers	Pancreas	Pancrea
9	chr11:107727600-107728600	Flanking Active TSS	K562	blood
10	chr11:107727600-107730400	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr11:107727600-107730400	Active TSS	NHEK	skin
12	chr11:107727600-107730800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr11:107727800-107728600	Enhancers	Primary B cells from cord blood	blood
14	chr11:107727800-107728600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr11:107727800-107728600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
16	chr11:107727800-107728800	Active TSS	Colonic Mucosa	Colon
17	chr11:107727800-107729400	Bivalent Enhancer	Fetal Brain Male	brain
18	chr11:107727800-107730600	Active TSS	A549	lung
19	chr11:107727800-107730800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr11:107727800-107730800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr11:107727800-107731000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
22	chr11:107727800-107731200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr11:107728000-107728600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr11:107728000-107728600	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
25	chr11:107728000-107728600	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
26	chr11:107728000-107728600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr11:107728000-107728600	Enhancers	Adipose Nuclei	Adipose
28	chr11:107728000-107728600	Flanking Active TSS	Hela-S3	cervix
29	chr11:107728000-107728600	Flanking Active TSS	HMEC	breast
30	chr11:107728000-107728600	Flanking Active TSS	HUVEC	blood vessel
31	chr11:107728000-107728800	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
32	chr11:107728000-107728800	Enhancers	Spleen	Spleen
33	chr11:107728000-107729000	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
34	chr11:107728000-107729600	Active TSS	Rectal Smooth Muscle	rectum
35	chr11:107728000-107729800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr11:107728000-107730400	Active TSS	Duodenum Smooth Muscle	Duodenum
37	chr11:107728000-107730400	Active TSS	GM12878-XiMat	blood
38	chr11:107728000-107730800	Active TSS	Esophagus	oesophagus
39	chr11:107728200-107728600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
40	chr11:107728200-107728600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr11:107728200-107728600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
42	chr11:107728200-107728800	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
43	chr11:107728200-107728800	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
44	chr11:107728200-107728800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
45	chr11:107728200-107729000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
46	chr11:107728200-107729000	Flanking Bivalent TSS/Enh	Fetal Brain Female	brain
47	chr11:107728200-107729200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
48	chr11:107728200-107729200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr11:107728200-107729400	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
50	chr11:107728200-107730400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell

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