Variant report

Variant	rs6441272
Chromosome Location	chr3:159493954-159493955
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:159481784..159484583-chr3:159491233..159495537,4	MCF-7	breast:
2	chr3:159481683..159485733-chr3:159491404..159494052,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000250588	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs13066560	0.90[CHB][hapmap]
rs13067050	1.00[CHB][hapmap]
rs13070254	0.88[YRI][hapmap]
rs13072356	0.93[ASN][1000 genomes]
rs13075534	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs13088481	0.93[ASN][1000 genomes]
rs13088959	0.90[CHB][hapmap]
rs13100614	0.90[CHB][hapmap];0.90[ASN][1000 genomes]
rs16830741	0.93[ASN][1000 genomes]
rs16830748	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs2076889	0.81[CHB][hapmap]
rs34586932	0.85[ASN][1000 genomes]
rs35035161	0.91[ASN][1000 genomes]
rs35792854	0.89[ASN][1000 genomes]
rs3863075	0.84[YRI][hapmap]
rs3892994	0.81[CHB][hapmap];0.91[ASN][1000 genomes]
rs3911714	0.84[YRI][hapmap]
rs4680522	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56077320	0.93[ASN][1000 genomes]
rs58755984	0.91[ASN][1000 genomes]
rs61597037	0.93[ASN][1000 genomes]
rs7636819	0.80[YRI][hapmap]
rs7640429	0.87[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv4084	chr3:159492488-159513251	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159484000-159494600	Weak transcription	Psoas Muscle	Psoas
2	chr3:159484200-159501200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:159484400-159505400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:159484600-159500400	Weak transcription	Fetal Intestine Small	intestine
5	chr3:159486800-159494000	Weak transcription	Fetal Heart	heart
6	chr3:159488400-159494600	Weak transcription	Spleen	Spleen
7	chr3:159490200-159501400	Weak transcription	Aorta	Aorta
8	chr3:159491000-159495200	Enhancers	Brain Cingulate Gyrus	brain
9	chr3:159491000-159495200	Enhancers	Colon Smooth Muscle	Colon
10	chr3:159491000-159495200	Enhancers	Rectal Smooth Muscle	rectum
11	chr3:159491000-159495200	Enhancers	HUVEC	blood vessel
12	chr3:159492200-159495000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:159492400-159495200	Enhancers	Brain Inferior Temporal Lobe	brain
14	chr3:159492600-159494400	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr3:159492600-159495000	Enhancers	Osteobl	bone
16	chr3:159492800-159494600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:159492800-159494800	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr3:159492800-159494800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr3:159492800-159494800	Enhancers	NHDF-Ad	bronchial
20	chr3:159492800-159495200	Enhancers	HSMM	muscle
21	chr3:159493000-159494000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr3:159493000-159494000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr3:159493000-159494000	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr3:159493000-159494000	Enhancers	Fetal Kidney	kidney
25	chr3:159493000-159494200	Enhancers	Hela-S3	cervix
26	chr3:159493000-159494800	Enhancers	Cortex derived primary cultured neurospheres	brain
27	chr3:159493000-159494800	Enhancers	Duodenum Smooth Muscle	Duodenum
28	chr3:159493000-159494800	Enhancers	Skeletal Muscle Male	skeletal muscle
29	chr3:159493000-159494800	Enhancers	NH-A	brain
30	chr3:159493000-159495000	Enhancers	Left Ventricle	heart
31	chr3:159493000-159495200	Enhancers	Muscle Satellite Cultured Cells	--
32	chr3:159493000-159495200	Enhancers	Adipose Nuclei	Adipose
33	chr3:159493200-159494200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr3:159493200-159494800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr3:159493400-159494000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr3:159493400-159494200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr3:159493400-159494600	Weak transcription	Pancreas	Pancrea
38	chr3:159493400-159494600	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr3:159493400-159495200	Enhancers	Brain Substantia Nigra	brain
40	chr3:159493400-159495200	Enhancers	HSMMtube	muscle
41	chr3:159493400-159500600	Weak transcription	Gastric	stomach
42	chr3:159493600-159494000	Enhancers	ES-I3 Cell Line	embryonic stem cell
43	chr3:159493600-159494000	Active TSS	Stomach Smooth Muscle	stomach
44	chr3:159493600-159494200	Enhancers	HUES64 Cell Line	embryonic stem cell
45	chr3:159493600-159494600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr3:159493600-159494600	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr3:159493600-159494600	Enhancers	Brain Angular Gyrus	brain
48	chr3:159493600-159494600	Weak transcription	Esophagus	oesophagus
49	chr3:159493600-159494600	Weak transcription	Fetal Muscle Leg	muscle
50	chr3:159493600-159494600	Weak transcription	Placenta	Placenta

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