Variant report

Variant	rs3766941
Chromosome Location	chr1:226074373-226074374
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:5)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:5 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MYBL2	chr1:226073983-226074390	HepG2	liver:	n/a	n/a
2	FOXA2	chr1:226073944-226074385	A549	lung:	n/a	n/a
3	HNF4A	chr1:226073939-226074405	HepG2	liver:	n/a	chr1:226074085-226074100
4	MYBL2	chr1:226073865-226074424	HepG2	liver:	n/a	n/a
5	POLR2A	chr1:226074210-226074524	K562	blood:	n/a	n/a

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:226061864..226068048-chr1:226072871..226078674,7	MCF-7	breast:
2	chr1:226072637..226074788-chr1:226108524..226110197,2	MCF-7	breast:
3	chr1:226069159..226072331-chr1:226072580..226074899,5	MCF-7	breast:
4	chr1:226074111..226075714-chr1:226076686..226078663,2	MCF-7	breast:
5	chr1:226068217..226073030-chr1:226073542..226076494,4	K562	blood:
6	chr1:226073428..226075918-chr1:226159575..226161542,2	K562	blood:
7	chr1:226070192..226076477-chr1:226076711..226082534,9	K562	blood:
8	chr1:226073077..226074812-chr1:226081952..226084486,2	K562	blood:
9	chr1:226034812..226037407-chr1:226072394..226075386,2	MCF-7	breast:
10	chr1:226068470..226072541-chr1:226072642..226075761,8	MCF-7	breast:

No data

Variant related genes	Relation type
TMEM63A	TF binding region
ENSG00000143811	Chromatin interaction
ENSG00000196187	Chromatin interaction
ENSG00000243709	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10047091	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10158952	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10915874	1.00[CEU][hapmap]
rs12061043	1.00[EUR][1000 genomes]
rs12071072	1.00[EUR][1000 genomes]
rs12071104	1.00[EUR][1000 genomes]
rs12074209	1.00[EUR][1000 genomes]
rs12074247	1.00[EUR][1000 genomes]
rs12075664	0.90[EUR][1000 genomes]
rs1877726	0.83[LWK][hapmap];0.89[YRI][hapmap]
rs2236143	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2271544	0.95[EUR][1000 genomes]
rs2292556	0.90[EUR][1000 genomes]
rs2292559	0.90[EUR][1000 genomes]
rs2292561	0.90[EUR][1000 genomes]
rs2292568	1.00[CEU][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs28384446	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28384447	0.86[EUR][1000 genomes]
rs28384448	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28384449	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3738050	0.90[EUR][1000 genomes]
rs3738051	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs3753663	0.90[EUR][1000 genomes]
rs3753666	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs3753668	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3753670	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3766935	0.90[EUR][1000 genomes]
rs3766936	0.90[EUR][1000 genomes]
rs3766937	1.00[CEU][hapmap];0.89[GIH][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes]
rs3766940	0.95[EUR][1000 genomes]
rs3806257	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3806258	1.00[EUR][1000 genomes]
rs41310561	1.00[EUR][1000 genomes]
rs4149227	1.00[CEU][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs4149228	1.00[CEU][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes]
rs4149230	0.90[EUR][1000 genomes]
rs45467394	0.84[EUR][1000 genomes]
rs4653437	0.81[YRI][hapmap]
rs56231004	1.00[EUR][1000 genomes]
rs56325807	0.90[EUR][1000 genomes]
rs57095220	0.90[EUR][1000 genomes]
rs57932384	0.90[EUR][1000 genomes]
rs59728172	0.90[EUR][1000 genomes]
rs60847271	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs60943392	0.90[EUR][1000 genomes]
rs61033712	0.90[EUR][1000 genomes]
rs61227102	0.90[EUR][1000 genomes]
rs61295362	0.90[EUR][1000 genomes]
rs6664740	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs74150536	0.90[EUR][1000 genomes]
rs7514448	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7516538	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1795046	chr1:225874059-226091150	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	esv1834932	chr1:225874059-226091150	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	esv1834948	chr1:225874059-226214882	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
4	nsv524126	chr1:225973777-226210653	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv873231	chr1:226019653-226134471	Enhancers Transcr. at gene 5' and 3' Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
6	esv2762223	chr1:226025175-226201716	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
7	nsv520628	chr1:226026406-226093362	Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:226071000-226076200	Weak transcription	Small Intestine	intestine
2	chr1:226071000-226076400	Weak transcription	Spleen	Spleen
3	chr1:226071000-226078600	Weak transcription	Lung	lung
4	chr1:226071000-226083600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr1:226071200-226074600	Weak transcription	Fetal Lung	lung
6	chr1:226071200-226075000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr1:226071200-226075400	Weak transcription	Ovary	ovary
8	chr1:226071200-226076200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr1:226071200-226076200	Weak transcription	Fetal Kidney	kidney
10	chr1:226071200-226076200	Weak transcription	A549	lung
11	chr1:226071200-226078200	Weak transcription	Gastric	stomach
12	chr1:226071200-226078200	Weak transcription	HMEC	breast
13	chr1:226071400-226075000	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr1:226071600-226076800	Weak transcription	Duodenum Mucosa	Duodenum
15	chr1:226071800-226074400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr1:226071800-226074400	Weak transcription	Colonic Mucosa	Colon
17	chr1:226071800-226074400	Weak transcription	Esophagus	oesophagus
18	chr1:226071800-226074400	Weak transcription	Rectal Smooth Muscle	rectum
19	chr1:226071800-226074600	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr1:226071800-226076000	Weak transcription	Right Ventricle	heart
21	chr1:226071800-226076400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr1:226071800-226076400	Weak transcription	Placenta	Placenta
23	chr1:226071800-226076800	Weak transcription	K562	blood
24	chr1:226071800-226078800	Weak transcription	Primary T cells from cord blood	blood
25	chr1:226072000-226075200	Enhancers	Primary neutrophils fromperipheralblood	blood
26	chr1:226072000-226076800	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr1:226072000-226081200	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr1:226072000-226081600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr1:226072000-226082000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr1:226073000-226077000	Strong transcription	Right Atrium	heart
31	chr1:226073200-226079800	Enhancers	Liver	Liver
32	chr1:226073800-226074600	Enhancers	Sigmoid Colon	Sigmoid Colon
33	chr1:226074000-226074400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr1:226074000-226074800	Enhancers	Fetal Intestine Large	intestine
35	chr1:226074000-226075200	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr1:226074200-226074400	Transcr. at gene 5' and 3'	HUES6 Cell Line	embryonic stem cell
37	chr1:226074200-226074400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
38	chr1:226074200-226074400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
39	chr1:226074200-226074400	Enhancers	NHDF-Ad	bronchial
40	chr1:226074200-226074600	Genic enhancers	Pancreas	Pancrea
41	chr1:226074200-226074600	Enhancers	Stomach Mucosa	stomach
42	chr1:226074200-226075000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
43	chr1:226074200-226075000	Flanking Active TSS	HepG2	liver
44	chr1:226074200-226075200	Enhancers	Fetal Intestine Small	intestine
45	chr1:226074200-226077000	Active TSS	ES-I3 Cell Line	embryonic stem cell

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