Variant report

Variant	rs11161618
Chromosome Location	chr1:85915402-85915403
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	chr1:85911377..85913833-chr1:85913866..85915628,2	MCF-7	breast:
2	chr1:85912844..85915674-chr1:86040925..86042753,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000153904	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12129502	0.83[CHB][hapmap]
rs12133722	0.84[CHB][hapmap]
rs12135333	0.81[CHB][hapmap]
rs12138852	0.84[CHB][hapmap]
rs12724823	0.84[CHB][hapmap]
rs12743049	0.84[CHB][hapmap]
rs1403956	0.88[CHD][hapmap];0.86[ASN][1000 genomes]
rs17384381	0.84[CHB][hapmap]
rs17388521	0.84[CHB][hapmap]
rs17590006	1.00[YRI][hapmap]
rs3768226	1.00[YRI][hapmap]

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	nsv1006994	chr1:85454304-86327679	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv830470	chr1:85820775-86014080	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv441699	chr1:85911291-85915402	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:85893800-85916800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr1:85901400-85923000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr1:85907000-85919600	Weak transcription	Right Atrium	heart
4	chr1:85909200-85916600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr1:85910400-85916000	Weak transcription	HMEC	breast
6	chr1:85911200-85917200	Enhancers	NHDF-Ad	bronchial
7	chr1:85911800-85916600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr1:85912200-85915600	Genic enhancers	HSMM	muscle
9	chr1:85912200-85916000	Enhancers	Liver	Liver
10	chr1:85912200-85917400	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr1:85912800-85915800	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr1:85912800-85916000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr1:85913400-85917800	Weak transcription	Fetal Kidney	kidney
14	chr1:85913800-85916600	Weak transcription	Fetal Intestine Small	intestine
15	chr1:85913800-85916800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr1:85913800-85916800	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr1:85913800-85916800	Weak transcription	Right Ventricle	heart
18	chr1:85913800-85918400	Weak transcription	Colon Smooth Muscle	Colon
19	chr1:85913800-85918400	Weak transcription	Fetal Intestine Large	intestine
20	chr1:85913800-85920400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr1:85914000-85917200	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr1:85914200-85916800	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr1:85914200-85917800	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr1:85914200-85924800	Weak transcription	Duodenum Mucosa	Duodenum
25	chr1:85914400-85916800	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr1:85914400-85917000	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr1:85914400-85917200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr1:85914400-85918800	Weak transcription	HepG2	liver
29	chr1:85914600-85917400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr1:85914600-85917400	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr1:85914600-85917600	Weak transcription	Fetal Lung	lung
32	chr1:85914800-85915600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr1:85914800-85915600	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr1:85914800-85915600	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr1:85914800-85915600	Enhancers	Brain Cingulate Gyrus	brain
36	chr1:85914800-85915600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
37	chr1:85914800-85915600	Enhancers	Gastric	stomach
38	chr1:85914800-85915600	Enhancers	Left Ventricle	heart
39	chr1:85914800-85915600	Enhancers	Pancreas	Pancrea
40	chr1:85914800-85915600	Enhancers	Psoas Muscle	Psoas
41	chr1:85914800-85915600	Enhancers	Skeletal Muscle Male	skeletal muscle
42	chr1:85914800-85915600	Enhancers	Spleen	Spleen
43	chr1:85914800-85915600	Genic enhancers	NHLF	lung
44	chr1:85914800-85915600	Genic enhancers	Osteobl	bone
45	chr1:85914800-85915800	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr1:85914800-85915800	Enhancers	Small Intestine	intestine
47	chr1:85914800-85915800	Enhancers	HUVEC	blood vessel
48	chr1:85914800-85916800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr1:85915000-85915600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr1:85915000-85915600	Enhancers	Brain Angular Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links