Variant report

Variant	rs607341
Chromosome Location	chr6:16801866-16801867
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:16766776..16769297-chr6:16800813..16803719,2	MCF-7	breast:
2	chr6:16786716..16790041-chr6:16799829..16802496,3	MCF-7	breast:
3	chr6:16794135..16797092-chr6:16800153..16802754,2	MCF-7	breast:
4	chr6:16761500..16763010-chr6:16800214..16802206,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000229931	Chromatin interaction
ENSG00000124788	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16879213	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs479736	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61213482	0.94[ASN][1000 genomes]
rs615823	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs675934	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72827847	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532022	chr6:16448152-16825567	ZNF genes & repeats Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031423	chr6:16467215-16823725	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1015992	chr6:16469059-16846847	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv538148	chr6:16469059-16846847	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:16799600-16802800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:16799600-16802800	Enhancers	NHDF-Ad	bronchial
3	chr6:16799600-16804400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:16799600-16809200	Enhancers	HepG2	liver
5	chr6:16799800-16802200	Enhancers	Primary hematopoietic stem cells	blood
6	chr6:16799800-16802800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:16799800-16802800	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr6:16799800-16803000	Enhancers	Skeletal Muscle Male	skeletal muscle
9	chr6:16800000-16803400	Weak transcription	Brain Germinal Matrix	brain
10	chr6:16800200-16802000	Weak transcription	NH-A	brain
11	chr6:16800200-16802600	Weak transcription	Left Ventricle	heart
12	chr6:16800200-16803200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr6:16800200-16805600	Weak transcription	HSMMtube	muscle
14	chr6:16800400-16803600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:16800600-16802200	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr6:16800600-16803000	Weak transcription	Colon Smooth Muscle	Colon
17	chr6:16800600-16803400	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr6:16801000-16802000	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr6:16801000-16802800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr6:16801000-16803200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:16801200-16802000	Weak transcription	Brain Anterior Caudate	brain
22	chr6:16801200-16803400	Weak transcription	Right Atrium	heart
23	chr6:16801400-16802000	Enhancers	A549	lung
24	chr6:16801400-16802200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr6:16801400-16802600	Weak transcription	Pancreatic Islets	Pancreatic Islet
26	chr6:16801400-16802800	Enhancers	Fetal Muscle Leg	muscle
27	chr6:16801400-16802800	Enhancers	Right Ventricle	heart
28	chr6:16801400-16802800	Enhancers	Osteobl	bone
29	chr6:16801400-16803000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr6:16801400-16803800	Enhancers	Cortex derived primary cultured neurospheres	brain
31	chr6:16801600-16802000	Enhancers	Brain Substantia Nigra	brain
32	chr6:16801600-16802000	Enhancers	Monocytes-CD14+_RO01746	blood
33	chr6:16801600-16802200	Flanking Active TSS	Fetal Heart	heart
34	chr6:16801600-16803200	Enhancers	Psoas Muscle	Psoas
35	chr6:16801600-16803600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr6:16801600-16804800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr6:16801800-16802200	Enhancers	Hela-S3	cervix
38	chr6:16801800-16802800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr6:16801800-16803400	Weak transcription	Fetal Brain Male	brain
40	chr6:16801800-16803400	Weak transcription	Fetal Muscle Trunk	muscle
41	chr6:16801800-16803600	Weak transcription	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links