Variant report

Variant	rs6884979
Chromosome Location	chr5:95180300-95180301
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:95177864..95180977-chr5:95197821..95200225,3	MCF-7	breast:
2	chr5:95116606..95117631-chr5:95177527..95180416,16	MCF-7	breast:
3	chr5:95137350..95139988-chr5:95179916..95183018,3	MCF-7	breast:
4	chr5:95122048..95125672-chr5:95179642..95182375,3	MCF-7	breast:
5	chr5:95061804..95065801-chr5:95176790..95180360,3	MCF-7	breast:
6	chr5:95064707..95068604-chr5:95176347..95180425,6	MCF-7	breast:
7	chr5:95144281..95145870-chr5:95178022..95180919,2	MCF-7	breast:
8	chr5:95175808..95177943-chr5:95180216..95182740,2	MCF-7	breast:
9	chr5:95065827..95067681-chr5:95178770..95180353,2	K562	blood:
10	chr5:94978692..94981484-chr5:95178419..95181281,2	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C5orf27-1	chr5:95179854-95180339	XLOC_004478
2	lnc-C5orf27-1	chr5:95179752-95180339	XLOC_004478

No data

Variant related genes	Relation type
ENSG00000250240	Chromatin interaction
ENSG00000164292	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10055875	0.98[ASN][1000 genomes]
rs10067941	0.93[ASN][1000 genomes]
rs10079710	0.96[ASN][1000 genomes]
rs12520664	0.96[ASN][1000 genomes]
rs2161312	0.94[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2161313	0.92[CEU][hapmap];0.89[LWK][hapmap];0.88[MKK][hapmap];0.84[TSI][hapmap]
rs2546196	0.96[ASN][1000 genomes]
rs2547996	0.88[CEU][hapmap];0.84[TSI][hapmap]
rs3797207	0.83[CHD][hapmap]
rs41470049	0.94[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6420125	0.83[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6556887	0.95[ASN][1000 genomes]
rs6556888	0.96[ASN][1000 genomes]
rs6882301	0.96[ASN][1000 genomes]
rs6883552	0.94[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7702848	0.94[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7703084	0.95[ASN][1000 genomes]
rs7708375	0.96[ASN][1000 genomes]
rs7716279	0.98[ASN][1000 genomes]
rs7719227	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs918469	0.92[CEU][hapmap];0.85[LWK][hapmap];0.86[MKK][hapmap];0.84[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830409	chr5:95006686-95204496	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1015180	chr5:95134357-95286446	Strong transcription Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:95171800-95185800	Weak transcription	Pancreas	Pancrea
2	chr5:95172200-95180400	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr5:95173400-95180800	Enhancers	Skeletal Muscle Female	skeletal muscle
4	chr5:95175800-95182200	Weak transcription	Esophagus	oesophagus
5	chr5:95176200-95181200	Enhancers	Placenta	Placenta
6	chr5:95176400-95180400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr5:95177000-95180600	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr5:95177000-95181400	Enhancers	Primary hematopoietic stem cells	blood
9	chr5:95177800-95192200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr5:95178200-95182200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr5:95178400-95188400	Weak transcription	Stomach Mucosa	stomach
12	chr5:95179000-95186200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr5:95179000-95206000	Weak transcription	Spleen	Spleen
14	chr5:95179200-95182200	Weak transcription	Thymus	Thymus
15	chr5:95179200-95182200	Weak transcription	HUVEC	blood vessel
16	chr5:95179200-95184200	Weak transcription	HSMM	muscle
17	chr5:95179200-95185800	Weak transcription	Lung	lung
18	chr5:95179400-95180400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
19	chr5:95179400-95180400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr5:95179400-95180600	Enhancers	Dnd41	blood
21	chr5:95179400-95181400	Weak transcription	HepG2	liver
22	chr5:95179400-95181600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr5:95179400-95181600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr5:95179400-95182000	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr5:95179400-95182200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr5:95179400-95182200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr5:95179400-95182200	Weak transcription	NHLF	lung
28	chr5:95179400-95182400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr5:95179400-95182400	Weak transcription	Brain Anterior Caudate	brain
30	chr5:95179400-95182400	Weak transcription	Brain Substantia Nigra	brain
31	chr5:95179400-95183000	Weak transcription	Fetal Heart	heart
32	chr5:95179400-95183600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr5:95179400-95184600	Weak transcription	NH-A	brain
34	chr5:95179400-95184600	Weak transcription	NHDF-Ad	bronchial
35	chr5:95179600-95182000	Weak transcription	Osteobl	bone
36	chr5:95179600-95183000	Enhancers	Primary neutrophils fromperipheralblood	blood
37	chr5:95179600-95184400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr5:95179800-95180400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr5:95179800-95180400	Flanking Active TSS	Liver	Liver
40	chr5:95179800-95180600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr5:95179800-95185200	Weak transcription	Left Ventricle	heart
42	chr5:95180000-95180400	Flanking Active TSS	Psoas Muscle	Psoas
43	chr5:95180000-95181000	Weak transcription	K562	blood
44	chr5:95180000-95182200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr5:95180000-95182400	Weak transcription	Fetal Intestine Small	intestine
46	chr5:95180000-95182400	Weak transcription	A549	lung
47	chr5:95180000-95182600	Weak transcription	Brain Hippocampus Middle	brain
48	chr5:95180000-95186000	Weak transcription	Right Atrium	heart
49	chr5:95180200-95180400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
50	chr5:95180200-95180400	Enhancers	Gastric	stomach

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