Variant report

Variant	rs11835079
Chromosome Location	chr12:31824547-31824548
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:149223795..149225326-chr12:31823553..31825073,2	MCF-7	breast:
2	chr12:31812744..31814749-chr12:31824204..31825895,2	MCF-7	breast:
3	chr12:31819291..31822149-chr12:31822447..31825439,3	K562	blood:
4	chr12:31820306..31823293-chr12:31823300..31825334,2	K562	blood:

Variant related genes	Relation type
ENSG00000206737	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs11830639	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11831623	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11832803	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11832825	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11833397	1.00[AMR][1000 genomes]
rs11833865	1.00[MEX][hapmap];1.00[AMR][1000 genomes]
rs11834122	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11835928	1.00[AMR][1000 genomes]
rs11836739	1.00[ASW][hapmap];1.00[YRI][hapmap]
rs35548973	1.00[AMR][1000 genomes]
rs55698487	1.00[AMR][1000 genomes]
rs55702366	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55704003	1.00[AMR][1000 genomes]
rs55717538	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55749071	1.00[AMR][1000 genomes]
rs56010814	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56122817	1.00[AMR][1000 genomes]
rs56131645	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56224974	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56348448	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56410922	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56947635	1.00[AMR][1000 genomes]
rs58644649	1.00[AMR][1000 genomes]
rs58672841	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59530163	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59834841	1.00[AMR][1000 genomes]
rs59956729	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60374609	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60557264	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60663805	1.00[AMR][1000 genomes]
rs60680259	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60942371	1.00[AMR][1000 genomes]
rs60971872	1.00[AMR][1000 genomes]
rs61373187	1.00[AMR][1000 genomes]
rs61398234	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61593882	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085127	1.00[AMR][1000 genomes]
rs74085129	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085131	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085134	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085139	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085141	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085142	1.00[AMR][1000 genomes]
rs74085158	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085160	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085162	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085164	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085165	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085166	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085167	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085168	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085193	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085194	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085196	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085198	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085199	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085201	0.91[AFR][1000 genomes];1.00[AMR][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	esv2760267	chr12:31626732-31909908	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
2	nsv1043010	chr12:31798446-32143151	ZNF genes & repeats Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv541446	chr12:31798446-32143151	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv3432694	chr12:31801467-32109828	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv898966	chr12:31810126-31944985	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:31813000-31826000	Weak transcription	Gastric	stomach
2	chr12:31813200-31837000	Weak transcription	Fetal Brain Male	brain
3	chr12:31813400-31825200	Weak transcription	Aorta	Aorta
4	chr12:31813400-31825400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr12:31813400-31825600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr12:31813400-31826600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr12:31813400-31835200	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr12:31813400-31835600	Weak transcription	Brain Angular Gyrus	brain
9	chr12:31813400-31836200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr12:31815200-31840600	Weak transcription	Pancreas	Pancrea
11	chr12:31815800-31826200	Weak transcription	Brain Substantia Nigra	brain
12	chr12:31817400-31850400	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr12:31822400-31824600	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr12:31822400-31825000	Weak transcription	Fetal Muscle Trunk	muscle
15	chr12:31822400-31827200	Weak transcription	Fetal Stomach	stomach
16	chr12:31822400-31828600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr12:31822400-31835600	Weak transcription	Fetal Lung	lung
18	chr12:31822400-31836600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr12:31822400-31840600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr12:31822600-31825600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr12:31822600-31826000	Weak transcription	Left Ventricle	heart
22	chr12:31822600-31826200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr12:31822600-31826200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr12:31822600-31827800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr12:31822600-31828000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr12:31822600-31829600	Weak transcription	Brain Hippocampus Middle	brain
27	chr12:31822600-31830400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr12:31822600-31830800	Weak transcription	HSMMtube	muscle
29	chr12:31822600-31835200	Weak transcription	Ovary	ovary
30	chr12:31822600-31835600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr12:31822600-31835600	Weak transcription	Fetal Brain Female	brain
32	chr12:31822600-31835600	Weak transcription	Fetal Muscle Leg	muscle
33	chr12:31822600-31836000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr12:31822600-31836400	Weak transcription	Brain Anterior Caudate	brain
35	chr12:31822600-31862000	Weak transcription	Rectal Smooth Muscle	rectum
36	chr12:31822600-31874200	Weak transcription	Right Ventricle	heart
37	chr12:31822800-31826400	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr12:31822800-31826600	Weak transcription	HSMM	muscle
39	chr12:31822800-31826800	Weak transcription	Placenta	Placenta
40	chr12:31822800-31827200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr12:31822800-31828800	Strong transcription	Primary B cells from peripheral blood	blood
42	chr12:31822800-31830400	Weak transcription	A549	lung
43	chr12:31822800-31830600	Weak transcription	Brain Germinal Matrix	brain
44	chr12:31822800-31830800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
45	chr12:31822800-31834800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr12:31822800-31835000	Weak transcription	Primary T helper cells PMA-I stimulated	--
47	chr12:31822800-31835400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr12:31822800-31835600	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr12:31822800-31835600	Weak transcription	Dnd41	blood
50	chr12:31823000-31824800	Strong transcription	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links