Variant report

Variant	rs12350679
Chromosome Location	chr9:97042062-97042063
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97021249..97023395-chr9:97039780..97042509,4	MCF-7	breast:
2	chr9:97039772..97041932-chr9:97042019..97043715,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000175787	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1064560	1.00[AFR][1000 genomes]
rs10821333	1.00[AFR][1000 genomes]
rs10821334	1.00[AFR][1000 genomes]
rs10821336	1.00[AFR][1000 genomes]
rs10993134	1.00[AFR][1000 genomes]
rs10993142	1.00[AFR][1000 genomes]
rs12337094	1.00[AFR][1000 genomes]
rs12337563	1.00[AFR][1000 genomes]
rs12341738	1.00[AFR][1000 genomes]
rs12347725	1.00[AFR][1000 genomes]
rs34172416	1.00[AFR][1000 genomes]
rs34750754	1.00[AFR][1000 genomes]
rs35148223	1.00[AFR][1000 genomes]
rs35177967	1.00[AFR][1000 genomes]
rs35230494	1.00[AFR][1000 genomes]
rs36083433	1.00[AFR][1000 genomes]
rs55993768	1.00[AFR][1000 genomes]
rs67171407	1.00[AFR][1000 genomes]
rs7020359	1.00[AFR][1000 genomes]
rs7029667	1.00[AFR][1000 genomes]
rs7034579	1.00[AFR][1000 genomes]
rs7849604	1.00[AFR][1000 genomes]
rs7867183	1.00[AFR][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	esv3394266	chr9:96935210-97045514	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS 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	195 gene(s)	inside rSNPs	diseases
2	nsv893592	chr9:96973995-97295269	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv1046906	chr9:96999227-97239809	Enhancers Strong transcription Weak transcription 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	10 gene(s)	inside rSNPs	diseases
4	esv2761545	chr9:97025298-97356950	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer 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	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97022200-97042600	Weak transcription	Skeletal Muscle Male	skeletal muscle
2	chr9:97022200-97055200	Weak transcription	Aorta	Aorta
3	chr9:97022600-97055200	Weak transcription	Stomach Smooth Muscle	stomach
4	chr9:97022800-97042400	Weak transcription	Brain Angular Gyrus	brain
5	chr9:97022800-97054600	Weak transcription	Pancreas	Pancrea
6	chr9:97023000-97050000	Weak transcription	Right Ventricle	heart
7	chr9:97023000-97055400	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr9:97023400-97042800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr9:97030200-97048400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr9:97030400-97042200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr9:97031800-97050400	Weak transcription	Psoas Muscle	Psoas
12	chr9:97032400-97064600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr9:97032800-97042200	Weak transcription	Fetal Kidney	kidney
14	chr9:97033600-97054600	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr9:97034000-97042400	Weak transcription	HMEC	breast
16	chr9:97035600-97042200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr9:97036800-97062600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr9:97037400-97050200	Weak transcription	Colon Smooth Muscle	Colon
19	chr9:97037600-97044600	Weak transcription	Fetal Stomach	stomach
20	chr9:97039200-97053600	Weak transcription	Brain Hippocampus Middle	brain
21	chr9:97039200-97055000	Weak transcription	Brain Substantia Nigra	brain
22	chr9:97039200-97062600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr9:97039400-97054600	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr9:97039400-97067600	Weak transcription	Brain Cingulate Gyrus	brain
25	chr9:97040000-97064600	Weak transcription	Brain Germinal Matrix	brain
26	chr9:97040400-97042200	Enhancers	Placenta	Placenta
27	chr9:97040400-97043200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr9:97040400-97046000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr9:97040400-97046000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr9:97040400-97046000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
31	chr9:97040600-97043000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
32	chr9:97040600-97043000	ZNF genes & repeats	GM12878-XiMat	blood
33	chr9:97040600-97043400	Strong transcription	Primary T helper cells PMA-I stimulated	--
34	chr9:97040600-97043800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr9:97040600-97044000	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr9:97040600-97044000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr9:97040600-97044200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr9:97040600-97045400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
39	chr9:97040600-97046200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr9:97040600-97046600	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
41	chr9:97040800-97042200	Strong transcription	Duodenum Smooth Muscle	Duodenum
42	chr9:97040800-97042400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
43	chr9:97040800-97042400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
44	chr9:97040800-97042600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr9:97040800-97042800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr9:97040800-97042800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr9:97040800-97043200	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
48	chr9:97040800-97043200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr9:97040800-97043200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr9:97040800-97043200	Strong transcription	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links