Variant report

Variant	rs539910662
Chromosome Location	chr3:139213431-139213432
allele	A/G
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	POLR2A	chr3:139213376-139214242	GM12878	blood:	n/a	n/a
2	POLR2A	chr3:139213326-139213620	MCF-7	breast:	n/a	n/a
3	POLR2A	chr3:139213359-139214247	GM12892	blood:	n/a	n/a
4	POLR2A	chr3:139213373-139214241	GM12892	blood:	n/a	n/a

Variant related genes	Relation type
ENSG00000263538	TF binding region

Extended variants
information (count: 7 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877543	chr3:139021139-139327261	Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv1003154	chr3:139060841-139788752	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv536729	chr3:139060841-139788752	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv949635	chr3:139091219-139367043	Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv916193	chr3:139187767-139821526	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv1001460	chr3:139194633-139241616	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv967074	chr3:139212902-139216662	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Genic enhancers	TF binding region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:139208000-139215400	Weak transcription	Fetal Kidney	kidney
2	chr3:139208200-139249600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:139210400-139217200	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:139210800-139215000	Weak transcription	Fetal Intestine Large	intestine
5	chr3:139211800-139214000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr3:139212600-139213600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
7	chr3:139212600-139213600	ZNF genes & repeats	Esophagus	oesophagus
8	chr3:139212600-139213800	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:139212600-139213800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr3:139212600-139213800	ZNF genes & repeats	Spleen	Spleen
11	chr3:139212800-139213600	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr3:139212800-139213600	ZNF genes & repeats	Lung	lung
13	chr3:139212800-139213800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr3:139212800-139213800	ZNF genes & repeats	Fetal Intestine Small	intestine
15	chr3:139213000-139213600	Strong transcription	Brain Cingulate Gyrus	brain
16	chr3:139213000-139213600	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle
17	chr3:139213200-139228400	Weak transcription	Gastric	stomach
18	chr3:139213400-139214400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr3:139213400-139214600	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr3:139213400-139234200	Weak transcription	Ovary	ovary
21	chr3:139213400-139235600	Weak transcription	Pancreas	Pancrea
22	chr3:139213400-139235600	Weak transcription	Stomach Smooth Muscle	stomach
23	chr3:139213400-139239000	Weak transcription	Brain Substantia Nigra	brain

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