Variant report

Variant	rs13932
Chromosome Location	chr1:172411768-172411769
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:48)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:48 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	HDAC2	chr1:172411447-172411910	K562	blood:	n/a	n/a
2	EP300	chr1:172411438-172412428	K562	blood:	n/a	n/a
3	UBTF	chr1:172411412-172411979	K562	blood:	n/a	n/a
4	POLR2A	chr1:172411437-172412037	K562	blood:	n/a	n/a
5	REST	chr1:172411594-172411806	K562	blood:	n/a	n/a
6	MAX	chr1:172411503-172411927	K562	blood:	n/a	n/a
7	POLR2A	chr1:172411529-172411916	K562	blood:	n/a	n/a
8	PML	chr1:172411532-172411979	K562	blood:	n/a	n/a
9	ZMIZ1	chr1:172411409-172411893	K562	blood:	n/a	n/a
10	JUND	chr1:172411449-172411955	K562	blood:	n/a	n/a
11	MAX	chr1:172411470-172411916	K562	blood:	n/a	n/a
12	GABPA	chr1:172411508-172411966	K562	blood:	n/a	n/a
13	CCNT2	chr1:172411263-172411966	K562	blood:	n/a	n/a
14	TEAD4	chr1:172411333-172412133	K562	blood:	n/a	n/a
15	FOSL1	chr1:172411562-172411843	K562	blood:	n/a	n/a
16	JUN	chr1:172411502-172411905	K562	blood:	n/a	n/a
17	REST	chr1:172411506-172411954	K562	blood:	n/a	n/a
18	ELF1	chr1:172411421-172411858	K562	blood:	n/a	n/a
19	NR2F2	chr1:172411236-172412387	K562	blood:	n/a	chr1:172412004-172412019
20	TBL1XR1	chr1:172411514-172412342	K562	blood:	n/a	n/a
21	IRF1	chr1:172411397-172412718	K562	blood:	n/a	chr1:172411974-172411988
22	STAT1	chr1:172411459-172412045	K562	blood:	n/a	n/a
23	ZBTB7A	chr1:172411313-172411888	K562	blood:	n/a	n/a
24	RCOR1	chr1:172411521-172412323	K562	blood:	n/a	n/a
25	POLR2A	chr1:172411704-172411769	HepG2	liver:	n/a	n/a
26	STAT5A	chr1:172411396-172412082	K562	blood:	n/a	n/a
27	TAL1	chr1:172411504-172412013	K562	blood:	n/a	n/a
28	GATA2	chr1:172411460-172411986	K562	blood:	n/a	n/a
29	CTCF	chr1:172411604-172411827	K562	blood:	n/a	n/a
30	RCOR1	chr1:172411492-172412333	K562	blood:	n/a	n/a
31	POLR2A	chr1:172411549-172412009	K562	blood:	n/a	n/a
32	POLR2A	chr1:172411538-172411851	K562	blood:	n/a	n/a
33	TBL1XR1	chr1:172411526-172412291	K562	blood:	n/a	n/a
34	BHLHE40	chr1:172411539-172411930	K562	blood:	n/a	n/a
35	TRIM28	chr1:172411502-172411808	K562	blood:	n/a	n/a
36	MYC	chr1:172411548-172412117	K562	blood:	n/a	n/a
37	POLR2A	chr1:172411467-172411885	K562	blood:	n/a	n/a
38	CEBPD	chr1:172411507-172412043	K562	blood:	n/a	n/a
39	ATF1	chr1:172411552-172411992	K562	blood:	n/a	n/a
40	FOSL1	chr1:172411501-172412044	K562	blood:	n/a	n/a
41	ARID3A	chr1:172411312-172412501	K562	blood:	n/a	n/a
42	CUX1	chr1:172410982-172411869	K562	blood:	n/a	n/a
43	NR2F2	chr1:172411390-172412138	K562	blood:	n/a	chr1:172412004-172412019
44	CBX3	chr1:172411425-172412396	K562	blood:	n/a	n/a
45	STAT1	chr1:172410931-172412061	K562	blood:	n/a	n/a
46	MAZ	chr1:172411551-172411967	K562	blood:	n/a	n/a
47	STAT5A	chr1:172411396-172412143	K562	blood:	n/a	n/a
48	TEAD4	chr1:172411439-172412005	K562	blood:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:172410326..172414934-chr1:172499314..172504781,7	K562	blood:
2	chr1:172411739..172413283-chr17:73499365..73502360,2	MCF-7	breast:
3	chr1:172411064..172415256-chr1:172501216..172504781,6	K562	blood:
4	chr1:172411084..172422561-chr1:172496524..172504623,44	MCF-7	breast:
5	chr1:172396564..172399537-chr1:172408525..172411857,4	K562	blood:
6	chr1:172397474..172399263-chr1:172409397..172412332,2	MCF-7	breast:

No data

Variant related genes	Relation type
C1orf105	TF binding region
ENSG00000094975	Chromatin interaction
ENSG00000177303	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1063412	0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10752946	1.00[CHB][hapmap];0.84[CHD][hapmap];0.81[ASN][1000 genomes]
rs10752957	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs10798005	1.00[CHB][hapmap];0.84[CHD][hapmap];0.82[ASN][1000 genomes]
rs11484605	0.85[ASN][1000 genomes]
rs2157450	0.94[CEU][hapmap];0.81[CHD][hapmap];0.93[MEX][hapmap];0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs2213740	0.94[CEU][hapmap];0.83[EUR][1000 genomes]
rs2269613	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2269614	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2269615	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2269616	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2285170	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2285171	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2285172	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2285173	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2285174	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2285175	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2285176	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2301455	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2422141	0.85[ASN][1000 genomes]
rs3213563	1.00[ASN][1000 genomes]
rs3937046	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4916186	0.84[ASN][1000 genomes]
rs4916258	1.00[ASN][1000 genomes]
rs60302909	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6424923	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6658843	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs6669286	0.82[EUR][1000 genomes]
rs6673869	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6674073	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6680035	0.94[CEU][hapmap];0.81[CHD][hapmap];0.93[MEX][hapmap];0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs6689377	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6690191	0.82[EUR][1000 genomes]
rs6692458	0.83[CEU][hapmap]
rs6695139	0.83[CEU][hapmap]
rs6702667	1.00[CHB][hapmap];0.91[CHD][hapmap];0.84[ASN][1000 genomes]
rs7411767	0.85[ASN][1000 genomes]
rs7516301	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs7550016	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs9286858	0.94[CEU][hapmap]
rs929098	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9425308	0.93[ASW][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.82[ASN][1000 genomes]
rs9425311	1.00[CHB][hapmap];0.84[CHD][hapmap];0.83[ASN][1000 genomes]
rs9425313	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9425316	0.84[ASN][1000 genomes]
rs9425329	0.94[CEU][hapmap];0.81[CHD][hapmap];0.93[MEX][hapmap];0.80[TSI][hapmap]
rs9425334	0.94[CEU][hapmap];0.81[CHD][hapmap];0.93[MEX][hapmap];0.80[TSI][hapmap]
rs9425598	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs9425600	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.81[ASN][1000 genomes]
rs9425601	0.81[ASN][1000 genomes]
rs9425602	0.82[ASN][1000 genomes]
rs9425604	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9425606	0.93[ASW][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.85[LWK][hapmap];0.84[ASN][1000 genomes]
rs9425619	0.82[EUR][1000 genomes]

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172373000-172411800	Weak transcription	Brain Angular Gyrus	brain
2	chr1:172391000-172412200	Weak transcription	HSMMtube	muscle
3	chr1:172392000-172412200	Weak transcription	Right Ventricle	heart
4	chr1:172395600-172412200	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr1:172396200-172412000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr1:172396600-172412400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr1:172396800-172412200	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr1:172401200-172412400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr1:172401400-172411800	Weak transcription	Fetal Intestine Small	intestine
10	chr1:172401400-172412000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr1:172401400-172412000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr1:172401400-172412200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr1:172401400-172412800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr1:172401600-172411800	Weak transcription	Primary B cells from peripheral blood	blood
15	chr1:172401600-172412000	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr1:172401600-172412200	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr1:172402000-172412200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr1:172405400-172412200	Weak transcription	Fetal Intestine Large	intestine
19	chr1:172406400-172411800	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr1:172407000-172411800	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr1:172407200-172412200	Weak transcription	Fetal Brain Male	brain
22	chr1:172407400-172411800	Weak transcription	Fetal Lung	lung
23	chr1:172407800-172412000	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr1:172408000-172412000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr1:172408400-172411800	Weak transcription	NH-A	brain
26	chr1:172408600-172411800	Strong transcription	Fetal Thymus	thymus
27	chr1:172408800-172411800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr1:172409000-172411800	Weak transcription	Brain Cingulate Gyrus	brain
29	chr1:172409400-172412000	Strong transcription	Fetal Muscle Trunk	muscle
30	chr1:172409400-172412200	Enhancers	Primary T helper cells fromperipheralblood	blood
31	chr1:172409600-172412000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr1:172409600-172412000	Weak transcription	Rectal Smooth Muscle	rectum
33	chr1:172409800-172412000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
34	chr1:172409800-172412600	Enhancers	Primary neutrophils fromperipheralblood	blood
35	chr1:172410200-172411800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr1:172410200-172411800	Strong transcription	Osteobl	bone
37	chr1:172410400-172411800	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
38	chr1:172410400-172411800	Strong transcription	Rectal Mucosa Donor 29	rectum
39	chr1:172410400-172411800	Weak transcription	Stomach Mucosa	stomach
40	chr1:172410400-172412200	Enhancers	Primary T killer memory cells from peripheral blood	blood
41	chr1:172410600-172411800	Strong transcription	HUES48 Cell Line	embryonic stem cell
42	chr1:172410600-172411800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
43	chr1:172410800-172411800	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
44	chr1:172410800-172411800	Genic enhancers	Brain Dorsolateral Prefrontal Cortex	brain
45	chr1:172410800-172411800	Strong transcription	A549	lung
46	chr1:172410800-172411800	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
47	chr1:172410800-172411800	Strong transcription	NHLF	lung
48	chr1:172410800-172412000	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr1:172410800-172412000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr1:172410800-172412000	Genic enhancers	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links