Variant report

Variant	rs11625978
Chromosome Location	chr14:31412656-31412657
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:31412013..31413799-chr14:31413815..31415852,2	MCF-7	breast:
2	chr14:31412377..31414525-chr14:31418622..31420542,2	MCF-7	breast:
3	chr14:31397468..31399701-chr14:31410285..31412729,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10459469	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10483355	0.81[JPT][hapmap]
rs10483356	0.81[JPT][hapmap]
rs11623403	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17097531	0.85[JPT][hapmap]
rs1977130	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2295129	0.92[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55843943	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56136496	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57706775	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs58307523	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61129484	0.83[AMR][1000 genomes]
rs61976773	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61976775	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61976776	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61976779	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61976796	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61976799	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6571374	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs67898509	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7140551	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7142163	0.82[YRI][hapmap]
rs7150316	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7150699	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8008526	0.83[YRI][hapmap]
rs8008780	0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9671318	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv564169	chr14:30819087-31541494	Strong transcription Genic enhancers ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv901581	chr14:30978745-31585289	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv832762	chr14:31238634-31414038	Strong transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv564176	chr14:31365884-31413492	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv901585	chr14:31365884-31433473	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
6	nsv901586	chr14:31365884-31465241	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv564177	chr14:31381351-31425437	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv456197	chr14:31386426-31417816	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv564178	chr14:31386426-31417816	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:31345000-31435400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr14:31355800-31414400	Weak transcription	Spleen	Spleen
3	chr14:31356200-31412800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr14:31358000-31428200	Weak transcription	Small Intestine	intestine
5	chr14:31360200-31435600	Weak transcription	Gastric	stomach
6	chr14:31362200-31414400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr14:31362400-31435400	Weak transcription	Colonic Mucosa	Colon
8	chr14:31363000-31430600	Weak transcription	Brain Angular Gyrus	brain
9	chr14:31363000-31435200	Weak transcription	Esophagus	oesophagus
10	chr14:31364400-31415400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr14:31365800-31414200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr14:31365800-31435600	Weak transcription	Right Ventricle	heart
13	chr14:31370000-31414400	Weak transcription	Pancreas	Pancrea
14	chr14:31372400-31414400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr14:31377800-31435600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr14:31378000-31414400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr14:31378000-31439000	Weak transcription	Psoas Muscle	Psoas
18	chr14:31378800-31435200	Weak transcription	Aorta	Aorta
19	chr14:31378800-31435400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr14:31379000-31413800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr14:31380400-31415400	Weak transcription	Brain Germinal Matrix	brain
22	chr14:31381200-31414400	Weak transcription	Fetal Brain Female	brain
23	chr14:31381400-31414600	Weak transcription	NHLF	lung
24	chr14:31381400-31416600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr14:31381800-31414400	Weak transcription	K562	blood
26	chr14:31394200-31414400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr14:31394200-31414400	Weak transcription	Lung	lung
28	chr14:31394800-31414400	Weak transcription	Fetal Kidney	kidney
29	chr14:31395000-31435200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr14:31395000-31435200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr14:31396600-31429600	Weak transcription	Brain Substantia Nigra	brain
32	chr14:31398200-31414400	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr14:31398400-31426200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr14:31400000-31414400	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr14:31400200-31425600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr14:31401000-31415400	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr14:31401400-31414600	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr14:31403000-31414800	Weak transcription	Brain Cingulate Gyrus	brain
39	chr14:31403600-31414400	Weak transcription	Ovary	ovary
40	chr14:31403600-31414400	Weak transcription	Thymus	Thymus
41	chr14:31404400-31413800	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr14:31404600-31414400	Weak transcription	Rectal Smooth Muscle	rectum
43	chr14:31405200-31414400	Weak transcription	Brain Anterior Caudate	brain
44	chr14:31405200-31416200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
45	chr14:31405600-31413000	Weak transcription	Colon Smooth Muscle	Colon
46	chr14:31405600-31414400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr14:31405600-31414600	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr14:31405600-31415600	Weak transcription	NHDF-Ad	bronchial
49	chr14:31405800-31412800	Weak transcription	Stomach Smooth Muscle	stomach
50	chr14:31405800-31414200	Weak transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links