Variant report

Variant	rs1707606
Chromosome Location	chr3:101645933-101645934
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:101642851..101646450-chr3:101646744..101649155,3	MCF-7	breast:
2	chr3:101566961..101569726-chr3:101642997..101646954,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NFKBIZ-4	chr3:101645751-101646147	NONHSAT090918

Variant related genes	Relation type
ENSG00000144802	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1616007	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1620838	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1622608	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1672375	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs1672394	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1707601	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1707602	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1707603	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1707614	0.84[AFR][1000 genomes]
rs1707616	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs2203234	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2203235	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2221909	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2942708	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2942715	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2951449	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs67778216	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs771576	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv497784	chr3:101315009-102092989	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	esv3351469	chr3:101511702-101866448	Weak transcription Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv1010762	chr3:101584836-101803821	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101643200-101646000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr3:101643200-101646000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr3:101643200-101646200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr3:101643400-101646200	Enhancers	NHEK	skin
5	chr3:101643400-101646800	Enhancers	HMEC	breast
6	chr3:101643600-101646200	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr3:101643600-101646200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:101643600-101649200	Enhancers	Muscle Satellite Cultured Cells	--
9	chr3:101643600-101654000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr3:101643800-101646000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr3:101643800-101658400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr3:101644000-101654400	Weak transcription	Primary B cells from cord blood	blood
13	chr3:101644400-101646000	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr3:101644400-101646200	Enhancers	HUVEC	blood vessel
15	chr3:101644400-101648800	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr3:101644400-101651600	Weak transcription	Esophagus	oesophagus
17	chr3:101644600-101646200	Enhancers	NH-A	brain
18	chr3:101644600-101647600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:101644600-101647600	Weak transcription	NHDF-Ad	bronchial
20	chr3:101644600-101652800	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr3:101644800-101647600	Weak transcription	Hela-S3	cervix
22	chr3:101644800-101654000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr3:101645000-101646000	Enhancers	K562	blood
24	chr3:101645200-101646000	Enhancers	HUES64 Cell Line	embryonic stem cell
25	chr3:101645400-101646000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr3:101645400-101646200	Enhancers	HSMM	muscle
27	chr3:101645400-101646200	Enhancers	HSMMtube	muscle
28	chr3:101645400-101646200	Enhancers	Osteobl	bone
29	chr3:101645600-101646000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr3:101645600-101646000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr3:101645600-101646000	Enhancers	Small Intestine	intestine
32	chr3:101645600-101647600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr3:101645800-101646000	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr3:101645800-101646000	Enhancers	Stomach Mucosa	stomach
35	chr3:101645800-101647600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr3:101645800-101648000	Weak transcription	A549	lung
37	chr3:101645800-101650800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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