Variant report

Variant	rs11803825
Chromosome Location	chr1:71522969-71522970
allele	C/T
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	chr1:71522165-71523380	U87	brain:	n/a	n/a
2	POLR2A	chr1:71518549-71523144	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr1:71520511-71526660	PFSK-1	brain:	n/a	n/a
4	POLR2A	chr1:71518500-71525451	GM12878	blood:	n/a	n/a
5	POLR2A	chr1:71522931-71524107	GM12878	blood:	n/a	n/a
6	POLR2A	chr1:71522882-71523196	HepG2	liver:	n/a	n/a
7	POLR2A	chr1:71518050-71545780	K562	blood:	n/a	n/a
8	POLR2A	chr1:71522165-71523228	U87	brain:	n/a	n/a
9	POLR2A	chr1:71517495-71528843	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:71516613..71518647-chr1:71521237..71523462,2	K562	blood:

Variant related genes	Relation type
ZRANB2-AS1	TF binding region

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11802971	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60387882	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74090253	1.00[AFR][1000 genomes]
rs74090255	1.00[AFR][1000 genomes]
rs74090266	0.95[AFR][1000 genomes]
rs74090289	0.95[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv546472	chr1:71432984-71541003	Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	555 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:71513600-71533600	Weak transcription	Lung	lung
2	chr1:71514000-71525000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr1:71514000-71527400	Weak transcription	Colon Smooth Muscle	Colon
4	chr1:71514000-71530600	Weak transcription	Ovary	ovary
5	chr1:71514000-71533600	Weak transcription	Pancreas	Pancrea
6	chr1:71514000-71533600	Weak transcription	Right Ventricle	heart
7	chr1:71514200-71524200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr1:71514200-71533600	Weak transcription	Spleen	Spleen
9	chr1:71514400-71524400	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr1:71515800-71523200	Weak transcription	Dnd41	blood
11	chr1:71515800-71524600	Weak transcription	Fetal Brain Female	brain
12	chr1:71515800-71524800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr1:71515800-71525000	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr1:71515800-71525200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr1:71515800-71526000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr1:71515800-71541000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr1:71516000-71524400	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr1:71517000-71526000	Weak transcription	Thymus	Thymus
19	chr1:71517200-71523200	Weak transcription	K562	blood
20	chr1:71517600-71523000	Weak transcription	Osteobl	bone
21	chr1:71517600-71524400	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr1:71517600-71525000	Weak transcription	NHDF-Ad	bronchial
23	chr1:71518000-71523400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr1:71518200-71523600	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr1:71518200-71523800	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr1:71518600-71523000	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr1:71518800-71523600	Weak transcription	Fetal Lung	lung
28	chr1:71518800-71524400	Weak transcription	Brain Hippocampus Middle	brain
29	chr1:71519000-71523800	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr1:71519000-71526200	Weak transcription	Brain Substantia Nigra	brain
31	chr1:71519000-71530200	Weak transcription	Brain Cingulate Gyrus	brain
32	chr1:71519200-71523000	Weak transcription	A549	lung
33	chr1:71519200-71523200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr1:71519200-71525000	Weak transcription	HUVEC	blood vessel
35	chr1:71519200-71525800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr1:71519200-71533400	Weak transcription	Fetal Intestine Small	intestine
37	chr1:71519400-71523600	Weak transcription	Primary B cells from peripheral blood	blood
38	chr1:71519400-71524400	Weak transcription	Stomach Smooth Muscle	stomach
39	chr1:71519400-71525600	Weak transcription	Primary hematopoietic stem cells	blood
40	chr1:71519400-71528200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr1:71519600-71523000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr1:71519600-71523000	Weak transcription	Duodenum Mucosa	Duodenum
43	chr1:71519600-71528000	Weak transcription	Brain Germinal Matrix	brain
44	chr1:71519800-71523800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr1:71520000-71536800	Weak transcription	Aorta	Aorta
46	chr1:71520200-71523000	Weak transcription	Placenta	Placenta
47	chr1:71520200-71523200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr1:71520200-71523600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr1:71520200-71524400	Weak transcription	Fetal Muscle Leg	muscle
50	chr1:71520200-71525200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links