Variant report

Variant	rs1533217
Chromosome Location	chr1:211497091-211497092
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	CTCF	chr1:211496841-211497124	GM19238	blood:	n/a	chr1:211496971-211496987
2	CTCF	chr1:211496738-211497193	IMR90	lung:	n/a	chr1:211496971-211496987
3	FOXA1	chr1:211496828-211497160	T-47D	breast:	n/a	n/a
4	MXI1	chr1:211496808-211497131	GM12878	blood:	n/a	n/a
5	POLR2A	chr1:211497012-211497310	K562	blood:	n/a	n/a
6	CTCF	chr1:211496815-211497211	K562	blood:	n/a	chr1:211496971-211496987
7	ARID3A	chr1:211496847-211497161	HepG2	liver:	n/a	n/a
8	CTCF	chr1:211496846-211497122	ECC-1	luminal epithelium:	n/a	chr1:211496971-211496987
9	RCOR1	chr1:211496797-211497177	GM12878	blood:	n/a	n/a
10	CTCF	chr1:211496833-211497120	GM10266	blood:	n/a	chr1:211496971-211496987
11	POLR2A	chr1:211496663-211497229	HepG2	liver:	n/a	n/a
12	CTCF	chr1:211496861-211497098	GM13976	blood:	n/a	chr1:211496971-211496987
13	CTCF	chr1:211496827-211497115	LNCaP	prostate:	n/a	chr1:211496971-211496987
14	CTCF	chr1:211496801-211497205	H1-hESC	embryonic stem cell:	n/a	chr1:211496971-211496987
15	YY1	chr1:211496824-211497106	K562	blood:	n/a	chr1:211497001-211497013
16	RAD21	chr1:211496699-211497167	MCF-7	breast:	n/a	n/a
17	CTCF	chr1:211496827-211497105	ProgFib	skin:	n/a	chr1:211496971-211496987
18	CTCF	chr1:211496826-211497120	NHEK	skin:	n/a	chr1:211496971-211496987
19	RAD21	chr1:211496706-211497161	A549	lung:	n/a	n/a
20	CTCF	chr1:211496813-211497131	Medullo	brain:	n/a	chr1:211496971-211496987
21	CTCF	chr1:211496873-211497096	MCF-7	breast:	n/a	chr1:211496971-211496987
22	SMC3	chr1:211496767-211497207	Hela-S3	cervix:	n/a	n/a
23	CTCF	chr1:211496659-211497152	K562	blood:	n/a	chr1:211496971-211496987
24	RAD21	chr1:211496775-211497150	GM12878	blood:	n/a	n/a
25	RAD21	chr1:211496698-211497192	H1-hESC	embryonic stem cell:	n/a	n/a
26	FOS	chr1:211496752-211497155	MCF10A-Er-Src	breast:	n/a	n/a
27	RAD21	chr1:211496731-211497267	SK-N-SH_RA	brain:	n/a	n/a
28	RAD21	chr1:211496780-211497199	H1-hESC	embryonic stem cell:	n/a	n/a
29	YY1	chr1:211496796-211497156	GM12891	blood:	n/a	chr1:211497001-211497013
30	CTCF	chr1:211496758-211497183	A549	lung:	n/a	chr1:211496971-211496987
31	POLR2A	chr1:211496750-211497120	MCF10A-Er-Src	breast:	n/a	n/a
32	RAD21	chr1:211496817-211497170	SK-N-SH_RA	brain:	n/a	n/a
33	CTCF	chr1:211496878-211497112	A549	lung:	n/a	chr1:211496971-211496987
34	ARID3A	chr1:211496831-211497195	K562	blood:	n/a	n/a
35	CTCF	chr1:211496783-211497129	SK-N-SH_RA	brain:	n/a	chr1:211496971-211496987
36	FOXA1	chr1:211496791-211497140	HepG2	liver:	n/a	n/a
37	ZNF143	chr1:211496783-211497150	H1-hESC	embryonic stem cell:	n/a	n/a
38	CTCF	chr1:211496829-211497108	HUVEC	blood vessel:	n/a	chr1:211496971-211496987
39	SP4	chr1:211496830-211497117	H1-hESC	embryonic stem cell:	n/a	n/a
40	RAD21	chr1:211496527-211497374	SK-N-SH	brain:	n/a	n/a
41	CTCF	chr1:211496801-211497162	A549	lung:	n/a	chr1:211496971-211496987
42	TCF7L2	chr1:211497031-211497180	PANC-1	pancreas:	n/a	chr1:211497122-211497136
43	RAD21	chr1:211496886-211497117	K562	blood:	n/a	n/a
44	CTCF	chr1:211496719-211497197	K562	blood:	n/a	chr1:211496971-211496987
45	YY1	chr1:211496779-211497185	ECC-1	luminal epithelium:	n/a	chr1:211497001-211497013
46	SMC3	chr1:211496738-211497192	GM12878	blood:	n/a	n/a
47	EBF1	chr1:211496821-211497124	GM12878	blood:	n/a	n/a
48	RAD21	chr1:211496742-211497191	Hela-S3	cervix:	n/a	n/a
49	RAD21	chr1:211496793-211497161	A549	lung:	n/a	n/a
50	RAD21	chr1:211496631-211497335	HCT-116	colon:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr1:211496521..211497862-chr1:211828604..211829211,3	K562	blood:
2	chr1:211496635..211497393-chr1:211687095..211687634,2	K562	blood:
3	chr1:211496774..211497302-chr1:211649346..211650013,2	MCF-7	breast:
4	chr1:211496635..211497406-chr1:211649503..211650204,2	MCF-7	breast:
5	chr1:211496486..211497397-chr1:211525936..211526490,2	K562	blood:
6	chr1:211430748..211434395-chr1:211494509..211498724,4	K562	blood:
7	chr1:211432352..211434395-chr1:211496927..211498724,2	K562	blood:
8	chr1:211496926..211497544-chr1:211648620..211649442,2	K562	blood:
9	chr1:211495524..211497390-chr1:211498885..211501683,2	MCF-7	breast:
10	chr1:211496521..211497429-chr1:211544682..211545205,2	K562	blood:
11	chr1:211496929..211498645-chr1:211500892..211503324,2	K562	blood:
12	chr1:211496336..211497406-chr1:211687015..211687898,3	MCF-7	breast:

Variant related genes	Relation type
TRAF5	TF binding region
ENSG00000117625	Chromatin interaction
ENSG00000082512	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10449313	0.82[EUR][1000 genomes]
rs1055565	0.92[CEU][hapmap]
rs1084981	0.92[CEU][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10863884	0.88[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs10863888	0.92[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11119716	0.88[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs11580084	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs11811405	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs12027724	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs12116749	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12118279	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs12403576	0.88[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs1663522	0.91[CEU][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2798559	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2920908	0.83[EUR][1000 genomes]
rs2920911	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3002258	0.87[EUR][1000 genomes]
rs3111257	0.81[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs3111258	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs3738199	0.96[CEU][hapmap];0.95[CHB][hapmap]
rs3767377	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs3767378	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs4366377	0.88[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs4406705	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs4951520	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4951523	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4951736	0.83[ASN][1000 genomes]
rs4951741	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4951742	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6667740	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6689078	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs6696938	0.94[AFR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6700747	0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs6702366	0.88[AFR][1000 genomes]
rs6703361	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7520989	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7538692	0.97[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7550702	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs784369	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs784379	0.92[CEU][hapmap];0.81[CHB][hapmap];0.83[YRI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs784382	0.92[CEU][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs784383	0.80[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs784385	0.87[CEU][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs784389	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:211461200-211499600	Weak transcription	Psoas Muscle	Psoas
2	chr1:211461400-211499600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr1:211461600-211499600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr1:211478600-211499800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr1:211483600-211499600	Weak transcription	Fetal Heart	heart
6	chr1:211486400-211499400	Weak transcription	Stomach Mucosa	stomach
7	chr1:211486400-211500200	Weak transcription	Small Intestine	intestine
8	chr1:211487200-211498800	Weak transcription	Thymus	Thymus
9	chr1:211487200-211499400	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr1:211487200-211499600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr1:211487200-211499600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr1:211487200-211499600	Weak transcription	Brain Angular Gyrus	brain
13	chr1:211487200-211499600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr1:211487200-211499600	Weak transcription	Fetal Intestine Small	intestine
15	chr1:211487200-211499600	Weak transcription	Gastric	stomach
16	chr1:211487200-211499600	Weak transcription	Left Ventricle	heart
17	chr1:211487200-211499600	Weak transcription	Lung	lung
18	chr1:211487200-211499600	Weak transcription	Pancreas	Pancrea
19	chr1:211487200-211499800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr1:211487200-211499800	Weak transcription	Aorta	Aorta
21	chr1:211487200-211499800	Weak transcription	Esophagus	oesophagus
22	chr1:211487200-211499800	Weak transcription	Ovary	ovary
23	chr1:211487200-211499800	Weak transcription	Right Ventricle	heart
24	chr1:211487200-211500200	Weak transcription	Spleen	Spleen
25	chr1:211487400-211499600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr1:211487400-211499600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr1:211487400-211499600	Weak transcription	Brain Anterior Caudate	brain
28	chr1:211487400-211499600	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr1:211487400-211499600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr1:211487400-211499800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr1:211487400-211499800	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr1:211487400-211499800	Weak transcription	HSMMtube	muscle
33	chr1:211487600-211499600	Weak transcription	Brain Hippocampus Middle	brain
34	chr1:211487600-211499600	Weak transcription	NHLF	lung
35	chr1:211488000-211499600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr1:211488000-211499600	Weak transcription	Brain Substantia Nigra	brain
37	chr1:211488200-211499000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr1:211488200-211499400	Weak transcription	Rectal Smooth Muscle	rectum
39	chr1:211488200-211499600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr1:211488400-211499400	Weak transcription	Fetal Muscle Trunk	muscle
41	chr1:211488600-211499600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr1:211488600-211499600	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr1:211488600-211499600	Weak transcription	HUVEC	blood vessel
44	chr1:211488800-211498600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr1:211489200-211498000	Weak transcription	Primary B cells from cord blood	blood
46	chr1:211489200-211498400	Weak transcription	Fetal Thymus	thymus
47	chr1:211489200-211498800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr1:211489200-211498800	Weak transcription	GM12878-XiMat	blood
49	chr1:211489200-211499000	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr1:211489200-211499600	Weak transcription	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links