Variant report

Variant	rs12086725
Chromosome Location	chr1:10042775-10042776
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr1:10042665-10043129	K562	blood:	n/a	n/a

Variant related genes	Relation type
ENSG00000241326	TF binding region

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs6669115	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3385337	chr1:9105242-10082223	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	549 gene(s)	inside rSNPs	diseases
2	esv3417409	chr1:9683992-10241703	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv3372906	chr1:9838995-10052992	Genic enhancers Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv1012469	chr1:9925714-10147796	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
5	nsv1012301	chr1:9963962-10118393	Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	nsv534853	chr1:9963962-10118393	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription 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 miRNA target site	38 gene(s)	inside rSNPs	diseases
7	nsv1001742	chr1:9971776-10116767	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:10011000-10044800	Weak transcription	NHDF-Ad	bronchial
2	chr1:10021400-10043200	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr1:10021600-10049000	Weak transcription	HSMM	muscle
4	chr1:10023400-10044000	Weak transcription	HepG2	liver
5	chr1:10025800-10046800	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr1:10028400-10050000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr1:10030400-10043000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr1:10030800-10044600	Weak transcription	Brain Germinal Matrix	brain
9	chr1:10031600-10044600	Strong transcription	Fetal Intestine Large	intestine
10	chr1:10031600-10045600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr1:10031600-10046200	Strong transcription	Fetal Intestine Small	intestine
12	chr1:10031600-10047200	Strong transcription	Fetal Stomach	stomach
13	chr1:10032000-10043800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr1:10032000-10045200	Strong transcription	Fetal Muscle Trunk	muscle
15	chr1:10032000-10046600	Strong transcription	Liver	Liver
16	chr1:10032200-10044200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr1:10032200-10044200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr1:10032200-10045400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr1:10032400-10044200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr1:10032600-10043400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr1:10032600-10044400	Strong transcription	Primary T cells from cord blood	blood
22	chr1:10032800-10057000	Weak transcription	Psoas Muscle	Psoas
23	chr1:10033800-10044600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr1:10034400-10042800	Strong transcription	Placenta	Placenta
25	chr1:10034400-10048000	Weak transcription	Stomach Mucosa	stomach
26	chr1:10034800-10042800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
27	chr1:10035600-10051800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr1:10036000-10044600	Weak transcription	Fetal Kidney	kidney
29	chr1:10036000-10050400	Weak transcription	Primary hematopoietic stem cells	blood
30	chr1:10036600-10043800	Weak transcription	Brain Angular Gyrus	brain
31	chr1:10036600-10044800	Weak transcription	Fetal Heart	heart
32	chr1:10036600-10047800	Weak transcription	NHEK	skin
33	chr1:10036800-10051200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr1:10037200-10054600	Weak transcription	Fetal Brain Female	brain
35	chr1:10037600-10042800	Strong transcription	Duodenum Smooth Muscle	Duodenum
36	chr1:10037800-10044200	Strong transcription	Left Ventricle	heart
37	chr1:10038800-10046000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr1:10039000-10042800	Strong transcription	Spleen	Spleen
39	chr1:10039000-10044600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr1:10039000-10046600	Strong transcription	Monocytes-CD14+_RO01746	blood
41	chr1:10039400-10050800	Weak transcription	Colonic Mucosa	Colon
42	chr1:10039600-10048200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr1:10039600-10053600	Weak transcription	Colon Smooth Muscle	Colon
44	chr1:10040000-10042800	Strong transcription	Brain Hippocampus Middle	brain
45	chr1:10040000-10045400	Strong transcription	Fetal Muscle Leg	muscle
46	chr1:10040200-10045400	Strong transcription	Skeletal Muscle Female	skeletal muscle
47	chr1:10040400-10042800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr1:10040400-10044200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr1:10040400-10046400	Strong transcription	Primary monocytes fromperipheralblood	blood
50	chr1:10041000-10042800	Strong transcription	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links