Variant report

Variant	rs7539622
Chromosome Location	chr1:165513417-165513418
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	MAX	chr1:165513040-165513434	ECC-1	luminal epithelium:	n/a	n/a
2	NFIC	chr1:165512557-165513530	ECC-1	luminal epithelium:	n/a	n/a
3	E2F6	chr1:165512812-165513462	H1-hESC	embryonic stem cell:	n/a	n/a
4	RAD21	chr1:165513075-165513470	H1-hESC	embryonic stem cell:	n/a	chr1:165513224-165513234
5	NFIC	chr1:165513009-165513554	ECC-1	luminal epithelium:	n/a	n/a
6	MAX	chr1:165512824-165513487	H1-hESC	embryonic stem cell:	n/a	n/a
7	MAX	chr1:165512877-165513438	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
ENSG00000237463	TF binding region

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1011469	0.82[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1025159	0.85[CEU][hapmap];0.92[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.90[JPT][hapmap]
rs1157861	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12117066	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12126717	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12137629	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12143824	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12143868	0.80[ASN][1000 genomes]
rs1326374	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1409413	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1425753	0.91[ASN][1000 genomes]
rs16846547	0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16846623	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16846756	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16847073	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16847083	0.91[ASN][1000 genomes]
rs16847085	0.91[ASN][1000 genomes]
rs16847110	0.91[ASN][1000 genomes]
rs16847331	0.82[ASW][hapmap];0.92[CHB][hapmap];0.93[CHD][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap]
rs16847570	0.84[CHB][hapmap]
rs1913836	0.92[CHB][hapmap]
rs2152818	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2252342	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2478262	0.81[ASN][1000 genomes]
rs2553637	0.81[ASN][1000 genomes]
rs285421	0.91[ASN][1000 genomes]
rs285422	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[ASN][1000 genomes]
rs285435	0.97[ASN][1000 genomes]
rs285438	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs285462	0.83[ASN][1000 genomes]
rs285467	0.83[ASN][1000 genomes]
rs285468	0.83[ASN][1000 genomes]
rs285473	0.81[ASN][1000 genomes]
rs285474	0.81[ASN][1000 genomes]
rs285478	0.81[ASN][1000 genomes]
rs285479	0.81[ASN][1000 genomes]
rs34201742	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs401457	0.83[ASN][1000 genomes]
rs41267552	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs41267554	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4147146	0.91[CHB][hapmap]
rs55890197	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55957417	0.90[ASN][1000 genomes]
rs56201005	0.90[ASN][1000 genomes]
rs56277222	0.91[ASN][1000 genomes]
rs57799548	0.88[ASN][1000 genomes]
rs58058936	0.90[ASN][1000 genomes]
rs6662135	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6669449	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6696050	0.90[ASN][1000 genomes]
rs722260	0.90[ASN][1000 genomes]
rs72693816	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72693826	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74120755	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7521982	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7533908	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7535829	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7535979	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7554080	0.84[CHB][hapmap]
rs927844	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165511400-165513800	Enhancers	Fetal Lung	lung
2	chr1:165511400-165514200	Enhancers	Fetal Heart	heart
3	chr1:165512600-165514000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr1:165512800-165513600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr1:165512800-165513600	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
6	chr1:165512800-165513600	Enhancers	Brain Germinal Matrix	brain
7	chr1:165512800-165513600	Enhancers	Fetal Brain Male	brain
8	chr1:165512800-165513600	Enhancers	Fetal Muscle Trunk	muscle
9	chr1:165512800-165513600	Enhancers	Fetal Muscle Leg	muscle
10	chr1:165512800-165513800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr1:165512800-165513800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr1:165512800-165513800	Enhancers	Brain Cingulate Gyrus	brain
13	chr1:165512800-165513800	Enhancers	Brain Hippocampus Middle	brain
14	chr1:165512800-165513800	Enhancers	Brain Substantia Nigra	brain
15	chr1:165512800-165513800	Enhancers	Pancreas	Pancrea
16	chr1:165512800-165513800	Enhancers	Psoas Muscle	Psoas
17	chr1:165512800-165514000	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
18	chr1:165512800-165514000	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
19	chr1:165512800-165514000	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr1:165512800-165514000	Enhancers	Placenta	Placenta
21	chr1:165512800-165514000	Enhancers	Right Atrium	heart
22	chr1:165512800-165514200	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
23	chr1:165512800-165514200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr1:165512800-165514200	Enhancers	Left Ventricle	heart
25	chr1:165512800-165514200	Enhancers	Right Ventricle	heart
26	chr1:165512800-165514200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
27	chr1:165512800-165514400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
28	chr1:165513000-165513600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr1:165513000-165513800	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
30	chr1:165513000-165513800	Enhancers	Breast Myoepithelial Primary Cells	Breast
31	chr1:165513000-165513800	Enhancers	Brain Angular Gyrus	brain
32	chr1:165513000-165513800	Bivalent Enhancer	Colon Smooth Muscle	Colon
33	chr1:165513000-165514000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr1:165513200-165513600	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr1:165513200-165514000	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
36	chr1:165513400-165513600	Enhancers	iPS-18 Cell Line	embryonic stem cell
37	chr1:165513400-165513800	Enhancers	Brain Anterior Caudate	brain
38	chr1:165513400-165514000	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links