Variant report

Variant	rs2243062
Chromosome Location	chr5:76129241-76129242
allele	A/C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs2242987	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2242994	1.00[AMR][1000 genomes]
rs2242996	1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2243011	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2243013	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2243038	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2243061	1.00[AMR][1000 genomes]
rs2243063	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2243069	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7714226	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019669	chr5:75836365-76477788	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	nsv1015997	chr5:76079720-76129241	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1031491	chr5:76083382-76129241	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv2763908	chr5:76083394-76134777	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv882210	chr5:76086597-76140337	Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1020397	chr5:76086795-76129241	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv598684	chr5:76086795-76130113	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1025151	chr5:76086795-76134777	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv1025061	chr5:76087544-76129241	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv1033086	chr5:76088861-76129241	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv1021460	chr5:76089512-76129241	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
12	nsv1018194	chr5:76090951-76129241	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
13	esv3393424	chr5:76122720-76287744	Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
14	esv994503	chr5:76129230-76144182	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:76116000-76131600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr5:76116400-76131600	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr5:76116800-76134200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr5:76117400-76130800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr5:76117400-76134200	Weak transcription	Stomach Mucosa	stomach
6	chr5:76117400-76135200	Weak transcription	Colonic Mucosa	Colon
7	chr5:76118800-76134600	Weak transcription	HepG2	liver
8	chr5:76123000-76132400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr5:76123600-76132400	Strong transcription	Fetal Intestine Small	intestine
10	chr5:76126000-76130800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr5:76126000-76132800	Weak transcription	Aorta	Aorta
12	chr5:76127000-76131800	Strong transcription	Fetal Intestine Large	intestine
13	chr5:76127000-76134600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr5:76127200-76130200	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr5:76127200-76131800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr5:76127200-76134600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr5:76127400-76129400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr5:76127400-76134200	Weak transcription	Osteobl	bone
19	chr5:76127600-76132800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr5:76127800-76134400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr5:76128000-76132800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr5:76128000-76134600	Weak transcription	Small Intestine	intestine
23	chr5:76128200-76130400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr5:76128200-76130600	Strong transcription	H1 Cell Line	embryonic stem cell
25	chr5:76128200-76130600	Strong transcription	NHEK	skin
26	chr5:76128200-76133400	Strong transcription	HUES6 Cell Line	embryonic stem cell
27	chr5:76128400-76130200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
28	chr5:76128400-76130400	Strong transcription	HUES48 Cell Line	embryonic stem cell
29	chr5:76128400-76130400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
30	chr5:76128400-76130800	Strong transcription	Duodenum Mucosa	Duodenum
31	chr5:76128400-76132000	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr5:76128400-76132400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr5:76128400-76133000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr5:76128600-76129400	Strong transcription	Liver	Liver
35	chr5:76128600-76129600	Strong transcription	Primary neutrophils fromperipheralblood	blood
36	chr5:76128600-76129600	Strong transcription	Primary T cells from cord blood	blood
37	chr5:76128600-76129600	Strong transcription	NH-A	brain
38	chr5:76128600-76129800	Strong transcription	Pancreas	Pancrea
39	chr5:76128600-76129800	Strong transcription	A549	lung
40	chr5:76128600-76129800	Strong transcription	NHLF	lung
41	chr5:76128600-76130000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr5:76128600-76130000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr5:76128600-76130000	Strong transcription	HUVEC	blood vessel
44	chr5:76128600-76130200	Strong transcription	H9 Cell Line	embryonic stem cell
45	chr5:76128600-76130200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr5:76128600-76130200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
47	chr5:76128600-76130200	Strong transcription	Sigmoid Colon	Sigmoid Colon
48	chr5:76128600-76130200	Strong transcription	HMEC	breast
49	chr5:76128600-76130400	Strong transcription	iPS-15b Cell Line	embryonic stem cell
50	chr5:76128600-76130400	Strong transcription	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links