Variant report

Variant	rs12639390
Chromosome Location	chr3:150957902-150957903
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:150952073..150954804-chr3:150956645..150959268,2	K562	blood:

Variant related genes	Relation type
ENSG00000266798	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10513391	0.82[CHB][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10935831	0.83[CHB][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10935832	0.83[CHB][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10935833	0.83[CHB][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10935835	0.82[CHB][hapmap]
rs11925037	0.86[CHB][hapmap]
rs11926145	0.82[CHB][hapmap]
rs12636396	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16863287	0.82[CHB][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1882013	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34997694	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3773621	0.82[CHB][hapmap]
rs4680256	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680262	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680263	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4680307	0.83[CHB][hapmap]
rs58139829	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62282985	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6784934	0.83[CHB][hapmap]
rs7618206	0.81[ASN][1000 genomes]
rs7620767	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7648875	0.81[CHB][hapmap]

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	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150946200-150979400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:150946800-150969200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:150946800-150983600	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr3:150949000-150958400	Weak transcription	Primary hematopoietic stem cells	blood
5	chr3:150949200-150959200	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr3:150950000-150966400	Weak transcription	Primary B cells from cord blood	blood
7	chr3:150952800-150978400	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr3:150953000-150959000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr3:150953600-150959000	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr3:150953800-150983800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:150954400-150958200	Weak transcription	Colon Smooth Muscle	Colon
12	chr3:150954600-150958800	Weak transcription	Rectal Smooth Muscle	rectum
13	chr3:150956000-150962200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr3:150957800-150958000	Enhancers	H9 Cell Line	embryonic stem cell
15	chr3:150957800-150958200	Enhancers	Gastric	stomach
16	chr3:150957800-150958400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr3:150957800-150958400	Enhancers	Fetal Stomach	stomach
18	chr3:150957800-150959600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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