Variant report

Variant	rs3828257
Chromosome Location	chr2:114650256-114650257
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	RUNX3	chr2:114649837-114650302	GM12878	blood:	n/a	n/a
2	IRF1	chr2:114648308-114650459	K562	blood:	n/a	chr2:114649730-114649744 chr2:114650045-114650059
3	BHLHE40	chr2:114649601-114650444	GM12878	blood:	n/a	n/a
4	EBF1	chr2:114649953-114650279	GM12878	blood:	n/a	chr2:114650103-114650114
5	MYC	chr2:114649610-114650316	K562	blood:	n/a	n/a
6	POLR2A	chr2:114649975-114650314	Raji	blood:	n/a	n/a
7	POLR2A	chr2:114643910-114650805	GM12878	blood:	n/a	n/a
8	GATA1	chr2:114649402-114650388	PBDE	blood:	n/a	chr2:114650146-114650156
9	ZNF143	chr2:114649919-114650270	GM12878	blood:	n/a	n/a
10	MYC	chr2:114649661-114650652	K562	blood:	n/a	n/a
11	RCOR1	chr2:114649598-114650536	K562	blood:	n/a	n/a
12	ARID3A	chr2:114649233-114650553	K562	blood:	n/a	chr2:114649413-114649429
13	EP300	chr2:114649705-114650571	GM12878	blood:	n/a	n/a
14	POLR2A	chr2:114649952-114650431	GM12892	blood:	n/a	n/a
15	EP300	chr2:114649510-114650290	K562	blood:	n/a	n/a
16	JUN	chr2:114646678-114650600	K562	blood:	n/a	chr2:114647000-114647009 chr2:114647383-114647397
17	IRF1	chr2:114648226-114650775	K562	blood:	n/a	chr2:114650473-114650480 chr2:114649730-114649744 chr2:114650045-114650059
18	FOXA2	chr2:114649976-114650275	HepG2	liver:	n/a	n/a
19	TBL1XR1	chr2:114649353-114650279	GM12878	blood:	n/a	n/a
20	CCNT2	chr2:114649480-114650287	K562	blood:	n/a	n/a
21	JUND	chr2:114649823-114650658	K562	blood:	n/a	n/a
22	GATA2	chr2:114649592-114650360	HUVEC	blood vessel:	n/a	chr2:114650146-114650156 chr2:114650171-114650185
23	POLR2A	chr2:114649785-114650355	GM12878	blood:	n/a	n/a
24	POLR2A	chr2:114649623-114650329	GM12878	blood:	n/a	n/a
25	TAL1	chr2:114649537-114650475	K562	blood:	n/a	chr2:114650414-114650429 chr2:114650414-114650429
26	POLR2A	chr2:114646920-114650720	K562	blood:	n/a	n/a
27	POLR2A	chr2:114649450-114650872	GM12891	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr2:114649589..114651914-chr2:114675375..114678075,2	MCF-7	breast:
2	chr2:114648278..114650934-chr2:114677225..114679132,2	K562	blood:
3	chr2:114647663..114650657-chr2:114707458..114709843,3	K562	blood:
4	chr2:114510034..114517579-chr2:114643441..114655407,23	MCF-7	breast:
5	chr2:114647663..114650657-chr2:114707458..114709843,2	K562	blood:
6	chr2:114511479..114519908-chr2:114641728..114650266,13	MCF-7	breast:
7	chr2:114650237..114652032-chr2:114672762..114674303,2	MCF-7	breast:
8	chr2:114512680..114516386-chr2:114646106..114650521,15	K562	blood:
9	chr2:114512629..114516386-chr2:114645660..114650521,15	K562	blood:

Variant related genes	Relation type
ENSG00000270019	TF binding region
ENSG00000115084	Chromatin interaction
ENSG00000115091	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10173891	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10179207	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10188927	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10194262	0.94[ASN][1000 genomes]
rs10195450	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10199857	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10199930	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10204719	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10204979	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10208093	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11123215	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs11895582	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs11895596	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12617393	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12621090	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13387748	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13393280	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13396357	0.87[ASN][1000 genomes]
rs13426411	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13428539	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13429261	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13432142	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1467292	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs1504043	1.00[JPT][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1522915	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17040419	1.00[EUR][1000 genomes]
rs2047883	1.00[CHB][hapmap];0.86[JPT][hapmap];0.92[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2177263	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs4278936	0.88[ASN][1000 genomes]
rs4362566	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs4848357	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs59450025	1.00[EUR][1000 genomes]
rs6542179	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6706992	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6724586	1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6732402	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6735673	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6741741	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6741785	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs6742452	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6747278	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6759040	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7561061	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7575874	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7580099	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7581859	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs924804	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:114646400-114650800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr2:114646600-114651000	Active TSS	Breast Myoepithelial Primary Cells	Breast
3	chr2:114646800-114650600	Active TSS	Aorta	Aorta
4	chr2:114646800-114650800	Active TSS	HSMMtube	muscle
5	chr2:114647200-114650800	Active TSS	Primary T cells fromperipheralblood	blood
6	chr2:114648600-114651600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr2:114648600-114651600	Weak transcription	Esophagus	oesophagus
8	chr2:114648600-114651600	Weak transcription	Spleen	Spleen
9	chr2:114648600-114657800	Weak transcription	Gastric	stomach
10	chr2:114648600-114667600	Weak transcription	Lung	lung
11	chr2:114648800-114651600	Weak transcription	Pancreas	Pancrea
12	chr2:114648800-114653400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr2:114649000-114650400	Enhancers	Brain Cingulate Gyrus	brain
14	chr2:114649000-114651800	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr2:114649000-114652000	Weak transcription	Ovary	ovary
16	chr2:114649200-114650400	Enhancers	Fetal Intestine Large	intestine
17	chr2:114649200-114650800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr2:114649200-114651400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr2:114649200-114651400	Enhancers	Liver	Liver
20	chr2:114649200-114652000	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr2:114649200-114652000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr2:114649200-114653200	Enhancers	Brain Anterior Caudate	brain
23	chr2:114649200-114653400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr2:114649200-114661200	Weak transcription	Fetal Muscle Trunk	muscle
25	chr2:114649200-114673200	Weak transcription	Placenta	Placenta
26	chr2:114649400-114650400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr2:114649400-114650600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
28	chr2:114649400-114650600	Flanking Active TSS	HUVEC	blood vessel
29	chr2:114649400-114650800	Enhancers	Primary monocytes fromperipheralblood	blood
30	chr2:114649400-114650800	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
31	chr2:114649400-114650800	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
32	chr2:114649400-114650800	Flanking Active TSS	Osteobl	bone
33	chr2:114649400-114651000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
34	chr2:114649400-114651600	Weak transcription	Colonic Mucosa	Colon
35	chr2:114649400-114652200	Enhancers	Brain Angular Gyrus	brain
36	chr2:114649400-114654000	Genic enhancers	Primary B cells from peripheral blood	blood
37	chr2:114649400-114655200	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr2:114649600-114650400	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
39	chr2:114649600-114650400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
40	chr2:114649600-114650400	Enhancers	Fetal Lung	lung
41	chr2:114649600-114650400	Flanking Active TSS	NHDF-Ad	bronchial
42	chr2:114649600-114650800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr2:114649600-114650800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
44	chr2:114649600-114650800	Transcr. at gene 5' and 3'	NH-A	brain
45	chr2:114649600-114650800	Flanking Active TSS	NHEK	skin
46	chr2:114649600-114652000	Enhancers	Cortex derived primary cultured neurospheres	brain
47	chr2:114649600-114661000	Weak transcription	Fetal Muscle Leg	muscle
48	chr2:114649800-114650400	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr2:114649800-114650400	Enhancers	Sigmoid Colon	Sigmoid Colon
50	chr2:114649800-114650600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links