Variant report

Variant	rs11089442
Chromosome Location	chr22:30689998-30689999
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr22:30681129..30691076-chr22:30751303..30759078,14	K562	blood:
2	chr22:30689967..30692152-chr22:30752675..30754508,2	MCF-7	breast:
3	chr22:30685533..30687274-chr22:30688307..30690442,2	K562	blood:

Variant related genes	Relation type
ENSG00000099995	Chromatin interaction
ENSG00000187860	Chromatin interaction
ENSG00000239282	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1010324	0.82[CEU][hapmap]
rs11089441	1.00[LWK][hapmap]
rs11089447	0.82[CEU][hapmap]
rs11703385	0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11704358	1.00[LWK][hapmap]
rs12169094	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2074731	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs2267154	0.82[CEU][hapmap]
rs2267155	0.82[CEU][hapmap];0.83[MEX][hapmap];0.93[MKK][hapmap]
rs2267156	0.82[CEU][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap]
rs2283866	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2283870	0.82[CEU][hapmap]
rs2299827	0.81[CHB][hapmap];0.81[TSI][hapmap]
rs2839998	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs5994294	0.91[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs5994305	0.82[CEU][hapmap];0.82[MEX][hapmap]
rs5997637	0.82[CEU][hapmap];0.83[MEX][hapmap]
rs5997646	0.82[CEU][hapmap]
rs71331235	0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7288366	0.82[CEU][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap]
rs7289384	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7290317	0.82[CEU][hapmap];0.81[CHB][hapmap]
rs8141656	0.91[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];0.82[MKK][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs929271	1.00[LWK][hapmap]
rs9619096	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];0.95[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9619098	0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9620984	0.82[CEU][hapmap];0.81[CHB][hapmap];0.82[MEX][hapmap];0.93[MKK][hapmap]

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	nsv829171	chr22:30598030-31043578	Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv914968	chr22:30610570-30693581	Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv914969	chr22:30619599-30691631	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv914970	chr22:30619599-30850395	Active TSS Enhancers Genic enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
5	nsv834174	chr22:30619760-30746915	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv914971	chr22:30640308-30691631	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv914972	chr22:30640308-30693581	Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv1062388	chr22:30649179-30711443	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
9	esv1799458	chr22:30659798-30698035	Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
10	nsv588885	chr22:30661184-30691631	Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
11	nsv522605	chr22:30685076-30691631	Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:30686000-30700000	Weak transcription	Fetal Kidney	kidney
2	chr22:30686200-30691600	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr22:30686200-30720000	Weak transcription	Fetal Brain Male	brain
4	chr22:30686400-30701800	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr22:30686600-30700600	Genic enhancers	Fetal Thymus	thymus
6	chr22:30686800-30690400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr22:30686800-30694800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr22:30686800-30701800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr22:30686800-30707200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr22:30687000-30695800	Strong transcription	Brain Germinal Matrix	brain
11	chr22:30687000-30699600	Strong transcription	Fetal Brain Female	brain
12	chr22:30687200-30697200	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr22:30687400-30691600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr22:30687400-30692000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr22:30687400-30695200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr22:30687400-30695800	Strong transcription	Primary B cells from cord blood	blood
17	chr22:30687400-30696400	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr22:30687400-30696600	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr22:30687400-30701200	Weak transcription	K562	blood
20	chr22:30687400-30706800	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr22:30687600-30691000	Strong transcription	Primary T cells from cord blood	blood
22	chr22:30687600-30691000	Genic enhancers	Spleen	Spleen
23	chr22:30687600-30691200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr22:30687600-30691600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr22:30687600-30693000	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr22:30687600-30693400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr22:30687600-30694000	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr22:30687600-30694200	Strong transcription	Fetal Intestine Large	intestine
29	chr22:30687600-30694600	Strong transcription	Fetal Intestine Small	intestine
30	chr22:30687600-30695600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr22:30687600-30696400	Strong transcription	Primary neutrophils fromperipheralblood	blood
32	chr22:30687600-30697200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr22:30687600-30699000	Weak transcription	HepG2	liver
34	chr22:30687600-30699800	Genic enhancers	Esophagus	oesophagus
35	chr22:30687600-30701400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr22:30687800-30690000	Weak transcription	NH-A	brain
37	chr22:30687800-30691400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
38	chr22:30687800-30691400	Strong transcription	Muscle Satellite Cultured Cells	--
39	chr22:30687800-30691800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr22:30687800-30692000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr22:30687800-30693600	Strong transcription	Rectal Mucosa Donor 29	rectum
42	chr22:30687800-30694200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr22:30687800-30696400	Weak transcription	NHDF-Ad	bronchial
44	chr22:30687800-30696600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
45	chr22:30687800-30697600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr22:30687800-30698000	Strong transcription	Osteobl	bone
47	chr22:30688000-30690400	Strong transcription	Primary T helper cells fromperipheralblood	blood
48	chr22:30688000-30690400	Weak transcription	Brain Cingulate Gyrus	brain
49	chr22:30688000-30690800	Strong transcription	Primary T helper cells PMA-I stimulated	--
50	chr22:30688000-30691000	Weak transcription	Brain Substantia Nigra	brain

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