Variant report

Variant	rs6932679
Chromosome Location	chr6:144651839-144651840
allele	C/T
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:144651662..144654238-chr6:144661982..144664850,2	MCF-7	breast:
2	chr6:144651682..144653859-chr6:144654087..144657651,4	MCF-7	breast:
3	chr6:144641867..144643569-chr6:144651499..144653037,2	MCF-7	breast:
4	chr6:144641871..144646816-chr6:144650336..144652619,4	MCF-7	breast:
5	chr6:144619076..144621180-chr6:144649818..144652128,2	MCF-7	breast:
6	chr6:144605652..144608306-chr6:144651410..144654181,2	MCF-7	breast:
7	chr6:144647226..144649891-chr6:144650190..144651852,2	MCF-7	breast:
8	chr6:144604459..144608309-chr6:144650515..144653848,5	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000225311	Chromatin interaction
ENSG00000152818	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11970041	0.91[AMR][1000 genomes]
rs12178630	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17073670	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2223428	0.92[ASW][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2328570	0.95[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28737224	0.91[AMR][1000 genomes]
rs6570620	0.82[ASW][hapmap];0.80[LWK][hapmap];1.00[MEX][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6570621	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6570631	1.00[MEX][hapmap]
rs6902637	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6905106	1.00[ASN][1000 genomes]
rs7768531	0.92[ASW][hapmap];0.94[LWK][hapmap];0.84[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs9321971	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484865	1.00[MEX][hapmap];1.00[ASN][1000 genomes]
rs9484866	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9484867	1.00[ASN][1000 genomes]
rs9484868	0.95[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484869	1.00[MEX][hapmap];0.84[YRI][hapmap];0.91[AMR][1000 genomes]
rs9484870	0.91[AMR][1000 genomes]
rs9496924	1.00[ASN][1000 genomes]
rs9496929	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9496933	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9496934	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9496939	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496940	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496941	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496942	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496946	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9496947	0.91[AMR][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	nsv830832	chr6:144572378-144759023	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv2422260	chr6:144574591-144731630	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1031253	chr6:144599055-144883013	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv538461	chr6:144599055-144883013	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144636000-144656200	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr6:144636600-144654800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:144636800-144654800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr6:144636800-144656400	Weak transcription	Brain Substantia Nigra	brain
5	chr6:144639600-144660200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr6:144642200-144654800	Weak transcription	Primary hematopoietic stem cells	blood
7	chr6:144642200-144655200	Weak transcription	Thymus	Thymus
8	chr6:144642200-144659800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:144643600-144652600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:144643600-144656400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:144643800-144652000	Weak transcription	HSMM	muscle
12	chr6:144643800-144663000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr6:144644400-144652600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr6:144644400-144652600	Weak transcription	NHDF-Ad	bronchial
15	chr6:144646400-144655200	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr6:144646800-144652000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr6:144646800-144654600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr6:144648200-144652800	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr6:144648200-144661200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr6:144648600-144652200	Weak transcription	NHLF	lung
21	chr6:144648800-144672800	Weak transcription	Fetal Stomach	stomach
22	chr6:144649400-144652400	Weak transcription	Osteobl	bone
23	chr6:144649400-144652600	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr6:144649400-144652800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr6:144649400-144660000	Weak transcription	Colon Smooth Muscle	Colon
26	chr6:144650000-144653400	Enhancers	Ovary	ovary
27	chr6:144650200-144653200	Enhancers	Adipose Nuclei	Adipose
28	chr6:144650400-144653200	Enhancers	Fetal Heart	heart
29	chr6:144650600-144652000	Enhancers	Fetal Lung	lung
30	chr6:144650600-144652400	Enhancers	Fetal Intestine Small	intestine
31	chr6:144650600-144652600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
32	chr6:144650600-144652600	Enhancers	Brain Anterior Caudate	brain
33	chr6:144650600-144653400	Enhancers	ES-I3 Cell Line	embryonic stem cell
34	chr6:144650600-144653600	Enhancers	iPS-15b Cell Line	embryonic stem cell
35	chr6:144650800-144652000	Enhancers	Aorta	Aorta
36	chr6:144650800-144652400	Enhancers	Brain Germinal Matrix	brain
37	chr6:144650800-144652800	Enhancers	Skeletal Muscle Female	skeletal muscle
38	chr6:144650800-144653400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr6:144650800-144653400	Enhancers	Left Ventricle	heart
40	chr6:144650800-144653400	Enhancers	Stomach Mucosa	stomach
41	chr6:144650800-144653600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr6:144650800-144653600	Enhancers	Cortex derived primary cultured neurospheres	brain
43	chr6:144651000-144652000	Enhancers	Fetal Intestine Large	intestine
44	chr6:144651000-144652000	Enhancers	Fetal Kidney	kidney
45	chr6:144651000-144652000	Enhancers	Lung	lung
46	chr6:144651000-144652000	Enhancers	Psoas Muscle	Psoas
47	chr6:144651000-144652000	Enhancers	Small Intestine	intestine
48	chr6:144651000-144652000	Enhancers	Spleen	Spleen
49	chr6:144651000-144653000	Enhancers	Fetal Muscle Leg	muscle
50	chr6:144651000-144653200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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