Variant report

Variant	rs11046274
Chromosome Location	chr12:22200916-22200917
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:22199607..22203065-chr12:22209223..22212376,4	MCF-7	breast:
2	chr12:22168668..22170617-chr12:22199728..22202594,2	K562	blood:
3	chr12:21809057..21812387-chr12:22198017..22201408,5	K562	blood:
4	chr12:22197898..22202531-chr12:22202616..22208309,9	MCF-7	breast:
5	chr12:22199280..22201713-chr12:22218617..22220760,2	MCF-7	breast:
6	chr12:21810040..21811598-chr12:22199796..22202125,2	K562	blood:

Variant related genes	Relation type
ENSG00000111716	Chromatin interaction
ENSG00000111726	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10841930	0.83[CEU][hapmap];0.97[GIH][hapmap];0.89[MEX][hapmap];0.85[TSI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11046270	0.81[ASN][1000 genomes]
rs4762869	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4762871	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6487267	0.85[MEX][hapmap]
rs7138727	0.91[CEU][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7138799	0.83[CEU][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7979140	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051073	chr12:21910875-22271209	Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv2758298	chr12:22140834-22339299	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	esv2759883	chr12:22140834-22736907	Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv438196	chr12:22195202-22234058	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	esv1850259	chr12:22198865-22244741	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:22199000-22201000	Active TSS	Brain Angular Gyrus	brain
2	chr12:22199200-22201200	Active TSS	NHDF-Ad	bronchial
3	chr12:22199200-22201800	Active TSS	GM12878-XiMat	blood
4	chr12:22200000-22203000	Weak transcription	Esophagus	oesophagus
5	chr12:22200000-22203000	Weak transcription	Pancreas	Pancrea
6	chr12:22200000-22203000	Weak transcription	Small Intestine	intestine
7	chr12:22200000-22203200	Weak transcription	Gastric	stomach
8	chr12:22200000-22208400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr12:22200000-22209400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr12:22200000-22209400	Weak transcription	Spleen	Spleen
11	chr12:22200000-22214400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr12:22200000-22218200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr12:22200000-22220200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr12:22200000-22220200	Weak transcription	Lung	lung
15	chr12:22200200-22201000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr12:22200200-22201000	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr12:22200200-22201200	Enhancers	Primary hematopoietic stem cells	blood
18	chr12:22200200-22201200	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr12:22200200-22201200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
20	chr12:22200200-22201200	Active TSS	Duodenum Mucosa	Duodenum
21	chr12:22200200-22201200	Active TSS	Rectal Smooth Muscle	rectum
22	chr12:22200200-22201400	Weak transcription	Placenta	Placenta
23	chr12:22200200-22201800	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
24	chr12:22200200-22201800	Weak transcription	Fetal Muscle Trunk	muscle
25	chr12:22200200-22202000	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
26	chr12:22200200-22202000	Enhancers	Primary T helper naive cells from peripheral blood	blood
27	chr12:22200200-22202000	Enhancers	Colon Smooth Muscle	Colon
28	chr12:22200200-22202000	Enhancers	Psoas Muscle	Psoas
29	chr12:22200200-22202400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
30	chr12:22200200-22203000	Weak transcription	Ovary	ovary
31	chr12:22200200-22203000	Weak transcription	Stomach Mucosa	stomach
32	chr12:22200200-22203400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
33	chr12:22200200-22203600	Weak transcription	Thymus	Thymus
34	chr12:22200200-22208200	Weak transcription	Primary B cells from peripheral blood	blood
35	chr12:22200200-22208400	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr12:22200200-22208600	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr12:22200200-22208800	Weak transcription	Primary neutrophils fromperipheralblood	blood
38	chr12:22200200-22209000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr12:22200200-22209000	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr12:22200200-22209200	Weak transcription	Primary B cells from cord blood	blood
41	chr12:22200200-22209200	Weak transcription	Right Ventricle	heart
42	chr12:22200200-22209200	Weak transcription	HSMM	muscle
43	chr12:22200200-22209400	Weak transcription	Left Ventricle	heart
44	chr12:22200200-22209400	Weak transcription	Skeletal Muscle Male	skeletal muscle
45	chr12:22200200-22215200	Weak transcription	HSMMtube	muscle
46	chr12:22200200-22215800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr12:22200200-22219600	Weak transcription	Aorta	Aorta
48	chr12:22200400-22201000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
49	chr12:22200400-22201000	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr12:22200400-22201000	Enhancers	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links