Variant report

Variant	rs60399182
Chromosome Location	chr6:15281961-15281962
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15278983..15281973-chr6:15299059..15301860,2	K562	blood:
2	chr6:15281542..15283134-chr6:15285264..15286810,2	MCF-7	breast:
3	chr6:15275776..15277697-chr6:15279697..15282861,3	K562	blood:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11962534	0.85[AMR][1000 genomes]
rs11968080	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11970569	0.85[AMR][1000 genomes]
rs16876282	0.85[AMR][1000 genomes]
rs58339366	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6941059	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73361517	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73363106	0.85[AMR][1000 genomes]
rs73363107	0.85[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:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15261000-15283800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr6:15269200-15290000	Weak transcription	NHLF	lung
3	chr6:15270000-15285400	Weak transcription	Thymus	Thymus
4	chr6:15270200-15288800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:15275000-15282600	Enhancers	Primary B cells from peripheral blood	blood
6	chr6:15275400-15286000	Weak transcription	HSMM	muscle
7	chr6:15275400-15287800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr6:15275600-15285000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:15276200-15282600	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr6:15276600-15282000	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr6:15276800-15287800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:15276800-15293200	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr6:15277200-15285200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr6:15277200-15289200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:15277200-15294000	Weak transcription	Fetal Muscle Leg	muscle
16	chr6:15278800-15282000	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr6:15278800-15282400	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr6:15278800-15282400	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr6:15279000-15282400	Enhancers	Fetal Intestine Small	intestine
20	chr6:15279000-15282600	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr6:15279200-15282000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr6:15279200-15282000	Enhancers	Brain Germinal Matrix	brain
23	chr6:15279200-15282200	Enhancers	iPS-15b Cell Line	embryonic stem cell
24	chr6:15279200-15282400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr6:15279400-15282200	Enhancers	HUES64 Cell Line	embryonic stem cell
26	chr6:15279400-15282600	Enhancers	Primary hematopoietic stem cells	blood
27	chr6:15279600-15282000	Enhancers	ES-I3 Cell Line	embryonic stem cell
28	chr6:15279600-15282000	Enhancers	Rectal Smooth Muscle	rectum
29	chr6:15279600-15282200	Enhancers	Breast Myoepithelial Primary Cells	Breast
30	chr6:15279600-15282200	Enhancers	Rectal Mucosa Donor 31	rectum
31	chr6:15279600-15282400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
32	chr6:15279600-15282600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
33	chr6:15279600-15282600	Enhancers	Fetal Lung	lung
34	chr6:15279800-15282000	Enhancers	Rectal Mucosa Donor 29	rectum
35	chr6:15279800-15282200	Enhancers	Primary T helper naive cells from peripheral blood	blood
36	chr6:15279800-15282800	Enhancers	Fetal Kidney	kidney
37	chr6:15279800-15284800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr6:15280000-15282600	Enhancers	Primary B cells from cord blood	blood
39	chr6:15280200-15282000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr6:15280200-15284400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr6:15280200-15286000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr6:15280200-15293800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr6:15280400-15282800	Enhancers	Liver	Liver
44	chr6:15280400-15282800	Enhancers	HepG2	liver
45	chr6:15280400-15284200	Weak transcription	A549	lung
46	chr6:15280400-15284600	Weak transcription	NH-A	brain
47	chr6:15280400-15287200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr6:15280400-15288800	Weak transcription	Pancreatic Islets	Pancreatic Islet
49	chr6:15280600-15282000	Enhancers	NHEK	skin
50	chr6:15280600-15282200	Enhancers	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links