Variant report

Variant	rs5879261
Chromosome Location	chr6:114663425-114663426
allele	-/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:114662119..114667220-chr6:114669334..114673077,6	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MARCKS-5	chr6:114663414-114663553	NONHSAT114608

Variant related genes	Relation type
ENSG00000218089	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024062	chr6:114311029-114679557	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases
2	esv34434	chr6:114465305-115462799	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
3	nsv464024	chr6:114489321-114837181	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
4	nsv604544	chr6:114489321-114837181	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	esv3692910	chr6:114597419-115480580	Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
6	nsv528128	chr6:114597657-115471129	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
7	nsv818451	chr6:114597657-115471129	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	esv3390393	chr6:114662484-114665032	Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	esv3420121	chr6:114662709-114664707	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	esv12960	chr6:114663097-114665140	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv604545	chr6:114663349-114664823	Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
12	nsv341729	chr6:114663425-114663425	Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:114659800-114665400	Active TSS	H1 Cell Line	embryonic stem cell
2	chr6:114661000-114665000	Active TSS	iPS-15b Cell Line	embryonic stem cell
3	chr6:114661000-114665200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr6:114661000-114665800	Active TSS	Brain Anterior Caudate	brain
5	chr6:114661200-114665000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:114661200-114665200	Active TSS	ES-I3 Cell Line	embryonic stem cell
7	chr6:114661400-114665200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
8	chr6:114661400-114665400	Active TSS	H9 Cell Line	embryonic stem cell
9	chr6:114661400-114665600	Active TSS	Brain Angular Gyrus	brain
10	chr6:114661600-114665000	Active TSS	HUES64 Cell Line	embryonic stem cell
11	chr6:114661600-114665200	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr6:114661800-114665000	Active TSS	HUES48 Cell Line	embryonic stem cell
13	chr6:114662200-114665200	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr6:114662200-114665400	Active TSS	Brain Substantia Nigra	brain
15	chr6:114662200-114665600	Active TSS	Brain Cingulate Gyrus	brain
16	chr6:114662400-114664000	Bivalent/Poised TSS	HepG2	liver
17	chr6:114662400-114664400	Active TSS	HSMMtube	muscle
18	chr6:114662400-114665000	Active TSS	Fetal Kidney	kidney
19	chr6:114662400-114665400	Active TSS	Brain Inferior Temporal Lobe	brain
20	chr6:114662600-114663600	Active TSS	Skeletal Muscle Female	skeletal muscle
21	chr6:114662600-114664200	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
22	chr6:114662600-114664600	Active TSS	HSMM	muscle
23	chr6:114662600-114664800	Active TSS	Pancreatic Islets	Pancreatic Islet
24	chr6:114662800-114663600	Flanking Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr6:114662800-114663800	Bivalent/Poised TSS	Breast Myoepithelial Primary Cells	Breast
26	chr6:114662800-114663800	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
27	chr6:114662800-114663800	Bivalent Enhancer	Placenta	Placenta
28	chr6:114662800-114663800	Bivalent Enhancer	Spleen	Spleen
29	chr6:114662800-114664000	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr6:114662800-114664400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr6:114662800-114664400	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
32	chr6:114662800-114664600	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
33	chr6:114662800-114664800	Transcr. at gene 5' and 3'	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:114662800-114665000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr6:114662800-114665000	Active TSS	Colon Smooth Muscle	Colon
36	chr6:114662800-114665200	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr6:114663000-114663600	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr6:114663000-114663600	Bivalent Enhancer	HUVEC	blood vessel
39	chr6:114663000-114664000	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr6:114663000-114664600	Bivalent/Poised TSS	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr6:114663000-114664800	Bivalent/Poised TSS	NHLF	lung
42	chr6:114663000-114665000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr6:114663000-114665000	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:114663000-114665000	Bivalent Enhancer	Liver	Liver
45	chr6:114663000-114665000	Bivalent/Poised TSS	Psoas Muscle	Psoas
46	chr6:114663200-114663600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr6:114663200-114663600	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr6:114663200-114663600	Flanking Active TSS	Pancreas	Pancrea
49	chr6:114663200-114663600	Flanking Bivalent TSS/Enh	Thymus	Thymus
50	chr6:114663200-114663800	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links