Variant report

Variant	rs12446802
Chromosome Location	chr16:31906572-31906573
allele	A/C
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	chr16:31903315-31906688	GM12878	blood:	n/a	n/a
2	POLR2A	chr16:31906316-31906638	GM12892	blood:	n/a	n/a
3	POLR2A	chr16:31905725-31906638	GM12891	blood:	n/a	n/a
4	POLR2A	chr16:31903797-31906692	GM12892	blood:	n/a	n/a
5	POLR2A	chr16:31905715-31906695	GM12878	blood:	n/a	n/a
6	POLR2A	chr16:31906428-31906628	GM12891	blood:	n/a	n/a
7	POLR2A	chr16:31906130-31906679	GM12892	blood:	n/a	n/a
8	POLR2A	chr16:31905889-31906638	GM12891	blood:	n/a	n/a
9	POLR2A	chr16:31903363-31906662	GM12892	blood:	n/a	n/a
10	POLR2A	chr16:31905782-31906673	GM12891	blood:	n/a	n/a

Variant related genes	Relation type
ENSG00000259950	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs17519579	1.00[ASW][hapmap]
rs72793043	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72793046	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1067321	chr16:31652036-31959992	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
2	nsv918074	chr16:31669781-31935033	ZNF genes & repeats Weak transcription Genic enhancers Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv1063037	chr16:31669981-31934894	Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
4	nsv542903	chr16:31669981-31934894	Flanking Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
5	nsv1066522	chr16:31831196-31959992	ZNF genes & repeats Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers 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	26 gene(s)	inside rSNPs	diseases
6	nsv1057300	chr16:31862900-31959992	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv833196	chr16:31897381-32068953	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	esv1850460	chr16:31905688-32097085	Strong transcription ZNF genes & repeats Weak transcription Active TSS Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:31887800-31907400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr16:31889400-31911600	ZNF genes & repeats	Primary B cells from cord blood	blood
3	chr16:31892000-31910400	ZNF genes & repeats	GM12878-XiMat	blood
4	chr16:31893000-31913200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr16:31893200-31911800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr16:31893400-31911400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr16:31893400-31911800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr16:31893400-31912000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
9	chr16:31893600-31917800	Weak transcription	Colon Smooth Muscle	Colon
10	chr16:31895000-31908400	Strong transcription	Primary T cells fromperipheralblood	blood
11	chr16:31895000-31909600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
12	chr16:31895800-31910200	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
13	chr16:31896600-31910400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
14	chr16:31897600-31912000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
15	chr16:31899600-31910200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
16	chr16:31900000-31908200	Strong transcription	Fetal Thymus	thymus
17	chr16:31900000-31911000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr16:31900000-31911400	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr16:31900400-31908800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr16:31900600-31907400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
21	chr16:31900600-31907600	Strong transcription	Fetal Intestine Large	intestine
22	chr16:31900600-31908400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr16:31900800-31907000	Strong transcription	Rectal Smooth Muscle	rectum
24	chr16:31900800-31907600	Strong transcription	Fetal Muscle Leg	muscle
25	chr16:31900800-31907800	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
26	chr16:31900800-31907800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr16:31900800-31908800	Strong transcription	Placenta	Placenta
28	chr16:31901000-31908600	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr16:31901000-31908800	ZNF genes & repeats	Duodenum Mucosa	Duodenum
30	chr16:31901200-31907800	Strong transcription	Adipose Nuclei	Adipose
31	chr16:31901800-31908000	Strong transcription	Brain Inferior Temporal Lobe	brain
32	chr16:31902000-31908000	Strong transcription	Primary neutrophils fromperipheralblood	blood
33	chr16:31902200-31907000	Strong transcription	Rectal Mucosa Donor 29	rectum
34	chr16:31902200-31907600	Strong transcription	HepG2	liver
35	chr16:31902200-31908000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr16:31902200-31908600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr16:31902400-31907800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr16:31902600-31906600	Strong transcription	Pancreas	Pancrea
39	chr16:31902600-31907200	Strong transcription	Fetal Lung	lung
40	chr16:31902800-31907600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr16:31903000-31907800	Strong transcription	Duodenum Smooth Muscle	Duodenum
42	chr16:31903000-31907800	Strong transcription	Gastric	stomach
43	chr16:31903200-31906800	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr16:31903200-31907400	Strong transcription	Primary T helper cells fromperipheralblood	blood
45	chr16:31903200-31908000	Strong transcription	Stomach Smooth Muscle	stomach
46	chr16:31903400-31906600	ZNF genes & repeats	Fetal Intestine Small	intestine
47	chr16:31903400-31906600	Strong transcription	Fetal Muscle Trunk	muscle
48	chr16:31903400-31906600	ZNF genes & repeats	Lung	lung
49	chr16:31903400-31907800	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr16:31903400-31908000	Strong transcription	Placenta Amnion	Placenta Amnion

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links