Variant report

Variant	rs11970569
Chromosome Location	chr6:15287411-15287412
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:164714985..164717486-chr6:15287245..15290158,2	MCF-7	breast:
2	chr6:15246208..15248645-chr6:15286361..15288344,2	K562	blood:
3	chr6:15246208..15249749-chr6:15286361..15290108,4	K562	blood:
4	chr6:15284933..15287671-chr6:15288948..15290634,2	MCF-7	breast:
5	chr6:15287052..15289953-chr6:15290312..15293224,4	K562	blood:
6	chr6:15277792..15279699-chr6:15286408..15288294,2	K562	blood:
7	chr6:15287044..15289498-chr6:15293703..15295568,2	K562	blood:

Variant related genes	Relation type
ENSG00000008083	Chromatin interaction
ENSG00000235488	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11962534	1.00[AMR][1000 genomes]
rs11970490	0.92[AFR][1000 genomes]
rs16876282	1.00[AMR][1000 genomes]
rs60399182	0.85[AMR][1000 genomes]
rs73363106	1.00[AMR][1000 genomes]
rs73363107	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv538142	chr6:15243960-15404893	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv601006	chr6:15275305-15300590	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv949448	chr6:15279490-15449441	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15269200-15290000	Weak transcription	NHLF	lung
2	chr6:15270200-15288800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:15275400-15287800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr6:15276800-15287800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:15276800-15293200	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr6:15277200-15289200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:15277200-15294000	Weak transcription	Fetal Muscle Leg	muscle
8	chr6:15280200-15293800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr6:15280400-15288800	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr6:15280800-15287600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:15281000-15287800	Weak transcription	Brain Cingulate Gyrus	brain
12	chr6:15281200-15289000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr6:15281400-15288200	Weak transcription	Brain Substantia Nigra	brain
14	chr6:15281400-15288200	Weak transcription	Right Ventricle	heart
15	chr6:15281400-15289000	Weak transcription	Lung	lung
16	chr6:15281400-15293400	Weak transcription	Esophagus	oesophagus
17	chr6:15281400-15296400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr6:15281600-15287600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr6:15281600-15294000	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr6:15281800-15293400	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr6:15281800-15300200	Weak transcription	Fetal Stomach	stomach
22	chr6:15282000-15287600	Weak transcription	Brain Germinal Matrix	brain
23	chr6:15282000-15288000	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr6:15282000-15288000	Weak transcription	Small Intestine	intestine
25	chr6:15282000-15288200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr6:15282000-15288200	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr6:15282200-15287800	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr6:15282200-15288800	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr6:15282200-15289000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr6:15282200-15289200	Weak transcription	Right Atrium	heart
31	chr6:15282400-15287800	Weak transcription	Spleen	Spleen
32	chr6:15282400-15288000	Weak transcription	Pancreas	Pancrea
33	chr6:15282400-15289200	Weak transcription	Ovary	ovary
34	chr6:15282400-15299400	Weak transcription	Fetal Intestine Small	intestine
35	chr6:15282600-15287800	Weak transcription	Psoas Muscle	Psoas
36	chr6:15282600-15288000	Weak transcription	Brain Hippocampus Middle	brain
37	chr6:15282600-15288600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr6:15282600-15290600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr6:15282600-15296400	Weak transcription	Duodenum Mucosa	Duodenum
40	chr6:15282800-15288000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
41	chr6:15282800-15290400	Weak transcription	Fetal Kidney	kidney
42	chr6:15284600-15290200	Enhancers	Primary monocytes fromperipheralblood	blood
43	chr6:15285200-15287800	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr6:15285200-15288000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr6:15285200-15296000	Weak transcription	Liver	Liver
46	chr6:15285200-15296400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr6:15285200-15299400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
48	chr6:15285200-15299400	Weak transcription	A549	lung
49	chr6:15285400-15287800	Weak transcription	Stomach Mucosa	stomach
50	chr6:15285400-15288800	Weak transcription	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links