Variant report

Variant	rs33055
Chromosome Location	chr3:159604214-159604215
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	BCLAF1	chr3:159603844-159604214	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:159602113..159604329-chr3:159720537..159722903,2	MCF-7	breast:

Variant related genes	Relation type
SCHIP1	TF binding region

Extended variants
information (count: 8 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1675496	0.96[MEX][hapmap]
rs33051	0.88[MEX][hapmap]
rs33053	0.84[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.87[GIH][hapmap];0.94[JPT][hapmap];0.80[MEX][hapmap];0.95[ASN][1000 genomes]
rs33057	0.83[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.99[ASN][1000 genomes]
rs33058	0.94[CHB][hapmap];0.94[JPT][hapmap];0.99[ASN][1000 genomes]
rs62270404	0.81[EUR][1000 genomes]

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	nsv877698	chr3:159583518-159640152	Genic enhancers Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv997776	chr3:159585097-159668421	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159588200-159605200	Weak transcription	Primary hematopoietic stem cells	blood
2	chr3:159590800-159617600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:159593400-159605400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr3:159594000-159606600	Weak transcription	Fetal Kidney	kidney
5	chr3:159596200-159613200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr3:159597000-159605800	Enhancers	Brain Angular Gyrus	brain
7	chr3:159599800-159609400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr3:159599800-159620400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr3:159600000-159610200	Weak transcription	Esophagus	oesophagus
10	chr3:159600000-159610200	Weak transcription	A549	lung
11	chr3:159600400-159605000	Weak transcription	Aorta	Aorta
12	chr3:159600400-159605400	Weak transcription	Adipose Nuclei	Adipose
13	chr3:159600800-159609400	Weak transcription	Fetal Brain Female	brain
14	chr3:159601000-159606000	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr3:159601000-159610200	Weak transcription	Placenta	Placenta
16	chr3:159601200-159604400	Enhancers	Rectal Smooth Muscle	rectum
17	chr3:159601200-159607200	Enhancers	Brain Hippocampus Middle	brain
18	chr3:159601200-159609800	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr3:159601200-159609800	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr3:159601200-159609800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr3:159601200-159610000	Weak transcription	Spleen	Spleen
22	chr3:159601200-159610200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:159601200-159615200	Weak transcription	Fetal Intestine Small	intestine
24	chr3:159601400-159604400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr3:159601400-159604600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:159601400-159605000	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr3:159601400-159605400	Enhancers	Brain Cingulate Gyrus	brain
28	chr3:159601400-159605400	Enhancers	Brain Substantia Nigra	brain
29	chr3:159601400-159605400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr3:159601400-159609400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr3:159601400-159609800	Weak transcription	H1 Cell Line	embryonic stem cell
32	chr3:159601400-159609800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr3:159601400-159610400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr3:159601400-159611600	Weak transcription	Lung	lung
35	chr3:159601400-159613800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr3:159601400-159615200	Weak transcription	Ovary	ovary
37	chr3:159601400-159618600	Weak transcription	Fetal Brain Male	brain
38	chr3:159601400-159620400	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr3:159601600-159606400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr3:159601600-159620400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr3:159601800-159605000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr3:159601800-159605400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr3:159602000-159605400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr3:159602000-159606000	Weak transcription	HMEC	breast
45	chr3:159602400-159605400	Enhancers	Stomach Smooth Muscle	stomach
46	chr3:159602600-159604400	Enhancers	Left Ventricle	heart
47	chr3:159602600-159605800	Enhancers	Right Ventricle	heart
48	chr3:159602600-159606400	Weak transcription	NHEK	skin
49	chr3:159602800-159605000	Weak transcription	NH-A	brain
50	chr3:159603000-159609400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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