Variant report

Variant	rs1433773
Chromosome Location	chr2:47213930-47213931
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:27)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:27 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:47213870..47217482-chr2:47217996..47221953,5	MCF-7	breast:
2	chr2:47209484..47211730-chr2:47212313..47214032,2	MCF-7	breast:
3	chr2:47212569..47215623-chr2:47548901..47551029,3	K562	blood:
4	chr2:47213873..47215501-chr2:47549847..47551396,20	K562	blood:
5	chr2:47213912..47214423-chr2:47498901..47499882,2	MCF-7	breast:
6	chr2:47206562..47208636-chr2:47212925..47215220,2	K562	blood:
7	chr2:47213500..47216240-chr2:47548901..47552350,5	K562	blood:
8	chr2:47141714..47144704-chr2:47213169..47216343,3	MCF-7	breast:
9	chr2:47211199..47217347-chr2:47399008..47404700,12	K562	blood:
10	chr2:47213903..47214786-chr2:47396818..47397476,2	MCF-7	breast:
11	chr2:47213608..47215277-chr2:47549985..47550910,10	MCF-7	breast:
12	chr2:47205847..47208964-chr2:47212925..47215633,5	K562	blood:
13	chr2:47141281..47143622-chr2:47212443..47214863,2	MCF-7	breast:
14	chr2:47209205..47217024-chr2:47399516..47404811,13	MCF-7	breast:
15	chr2:47212859..47216615-chr2:47301507..47304672,4	MCF-7	breast:
16	chr2:47213696..47215367-chr2:47239730..47241544,2	MCF-7	breast:
17	chr2:47164097..47165002-chr2:47213891..47214776,2	MCF-7	breast:
18	chr2:47187898..47188405-chr2:47213880..47214767,2	K562	blood:
19	chr2:47212899..47215171-chr2:47549795..47551134,10	MCF-7	breast:
20	chr2:47211854..47216258-chr2:47229137..47232912,5	K562	blood:
21	chr2:47212912..47216047-chr2:47549012..47553411,7	MCF-7	breast:
22	chr2:47210303..47217706-chr2:47402135..47406405,13	MCF-7	breast:
23	chr2:47212292..47217234-chr2:47401238..47405508,6	K562	blood:
24	chr2:47212036..47214586-chr2:47495464..47497856,2	MCF-7	breast:
25	chr2:47213916..47214788-chr2:47499094..47500691,5	MCF-7	breast:
26	chr2:47213839..47216114-chr2:47390613..47392812,2	K562	blood:
27	chr2:47213914..47214545-chr2:47245154..47245890,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000143933	Chromatin interaction
ENSG00000068724	Chromatin interaction
ENSG00000180398	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10183233	0.83[CHB][hapmap]
rs11685605	0.89[CEU][hapmap];1.00[CHB][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11883507	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12052808	0.89[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12712983	0.83[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap]
rs12712984	0.82[CHB][hapmap]
rs13395498	0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13406452	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1433772	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17480779	1.00[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs2347260	0.88[CHB][hapmap];0.83[ASN][1000 genomes]
rs2881587	0.94[CHB][hapmap];0.82[ASN][1000 genomes]
rs4952858	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6716882	0.84[ASN][1000 genomes]
rs6731862	0.89[CHB][hapmap];0.80[JPT][hapmap];0.84[ASN][1000 genomes]
rs6731875	0.80[ASN][1000 genomes]
rs736683	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs746915	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs7558171	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[YRI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7558196	0.88[CEU][hapmap];0.95[CHB][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7560371	0.94[CHB][hapmap];0.81[ASN][1000 genomes]
rs877047	0.81[CEU][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs877048	0.81[CEU][hapmap];0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs892381	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs993847	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817517	chr2:46819371-47715140	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
2	nsv457352	chr2:47004788-47325973	Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv581749	chr2:47004788-47325973	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv1004828	chr2:47056849-47814482	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
5	nsv524970	chr2:47162739-47302095	Enhancers Genic enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	nsv1000377	chr2:47189386-47344029	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv581750	chr2:47207665-47229953	Weak transcription Genic enhancers Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv525197	chr2:47210747-47297973	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:47169800-47214600	Weak transcription	Fetal Kidney	kidney
2	chr2:47196600-47227800	Strong transcription	Dnd41	blood
3	chr2:47200800-47216400	Genic enhancers	Fetal Thymus	thymus
4	chr2:47202000-47214800	Genic enhancers	Primary monocytes fromperipheralblood	blood
5	chr2:47207200-47214200	Genic enhancers	Primary T cells from cord blood	blood
6	chr2:47207200-47214400	Weak transcription	Brain Germinal Matrix	brain
7	chr2:47208000-47217400	Enhancers	Stomach Mucosa	stomach
8	chr2:47208200-47214600	Weak transcription	Fetal Brain Female	brain
9	chr2:47208400-47214800	Enhancers	HUVEC	blood vessel
10	chr2:47208600-47216000	Enhancers	Brain Substantia Nigra	brain
11	chr2:47208600-47219200	Enhancers	Brain Inferior Temporal Lobe	brain
12	chr2:47209400-47217200	Genic enhancers	NHLF	lung
13	chr2:47209600-47214600	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr2:47209600-47215200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr2:47209600-47217400	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr2:47209600-47218200	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr2:47209800-47214000	Strong transcription	HepG2	liver
18	chr2:47209800-47214400	Enhancers	Rectal Mucosa Donor 31	rectum
19	chr2:47209800-47214800	Enhancers	Primary hematopoietic stem cells	blood
20	chr2:47210000-47215200	Enhancers	Brain Anterior Caudate	brain
21	chr2:47210200-47214600	Genic enhancers	Primary T cells fromperipheralblood	blood
22	chr2:47210200-47214600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
23	chr2:47210200-47215200	Enhancers	Placenta Amnion	Placenta Amnion
24	chr2:47210200-47215800	Enhancers	Sigmoid Colon	Sigmoid Colon
25	chr2:47210400-47214800	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr2:47210600-47214000	Weak transcription	Gastric	stomach
27	chr2:47210600-47215600	Weak transcription	Psoas Muscle	Psoas
28	chr2:47210600-47215600	Enhancers	Skeletal Muscle Male	skeletal muscle
29	chr2:47210600-47216600	Enhancers	ES-I3 Cell Line	embryonic stem cell
30	chr2:47210800-47214000	Strong transcription	Fetal Intestine Large	intestine
31	chr2:47210800-47214200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr2:47210800-47215800	Enhancers	Spleen	Spleen
33	chr2:47211000-47214600	Genic enhancers	Thymus	Thymus
34	chr2:47211000-47214800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
35	chr2:47211000-47215800	Enhancers	Brain Hippocampus Middle	brain
36	chr2:47211200-47214200	Enhancers	K562	blood
37	chr2:47211200-47214400	Enhancers	Colon Smooth Muscle	Colon
38	chr2:47211200-47214400	Enhancers	Rectal Mucosa Donor 29	rectum
39	chr2:47211400-47214800	Genic enhancers	Osteobl	bone
40	chr2:47211400-47215600	Enhancers	Esophagus	oesophagus
41	chr2:47211400-47217600	Enhancers	Right Atrium	heart
42	chr2:47211600-47214200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
43	chr2:47211600-47214600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
44	chr2:47211600-47214800	Enhancers	HMEC	breast
45	chr2:47211800-47214000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr2:47211800-47214600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
47	chr2:47211800-47214600	Enhancers	Lung	lung
48	chr2:47211800-47215600	Enhancers	Colonic Mucosa	Colon
49	chr2:47211800-47215800	Enhancers	HSMMtube	muscle
50	chr2:47211800-47218000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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