Variant report

Variant	rs7622090
Chromosome Location	chr3:140789739-140789740
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	chr3:140785419..140788357-chr3:140788951..140791966,3	MCF-7	breast:
2	chr3:140789496..140791213-chr3:140794078..140795843,2	K562	blood:

Variant related genes	Relation type
ENSG00000175093	Chromatin interaction

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

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

rs_ID	r²[population]
rs10935417	0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11928846	0.84[CEU][hapmap]
rs12494997	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1365630	0.93[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1426962	1.00[CEU][hapmap];0.82[CHB][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1426963	1.00[CEU][hapmap];0.82[CHB][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1559896	0.84[CEU][hapmap]
rs4683547	0.84[CEU][hapmap]
rs59279694	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6439977	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6771494	0.81[AFR][1000 genomes]
rs6793789	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6804474	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7639594	0.82[EUR][1000 genomes]
rs890528	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs919157	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9817298	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9817591	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9823283	1.00[CEU][hapmap];0.81[CHB][hapmap];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9823690	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9842086	0.92[CEU][hapmap];0.90[CHB][hapmap]
rs9844927	0.81[EUR][1000 genomes]
rs9882989	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

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	nsv432488	chr3:140752302-140790302	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Strong transcription Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140777400-140795000	Weak transcription	Fetal Brain Female	brain
2	chr3:140783600-140794200	Weak transcription	Fetal Kidney	kidney
3	chr3:140785400-140790000	Weak transcription	Right Ventricle	heart
4	chr3:140785800-140795000	Enhancers	Fetal Heart	heart
5	chr3:140785800-140795000	Weak transcription	Lung	lung
6	chr3:140786200-140794000	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr3:140786800-140789800	Strong transcription	Fetal Muscle Trunk	muscle
8	chr3:140787200-140789800	Weak transcription	Fetal Lung	lung
9	chr3:140787600-140790400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr3:140787800-140791200	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr3:140788000-140791400	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr3:140788000-140793000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:140788200-140789800	Weak transcription	Pancreas	Pancrea
14	chr3:140788200-140791800	Genic enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr3:140788200-140797200	Enhancers	H9 Cell Line	embryonic stem cell
16	chr3:140788400-140789800	Weak transcription	Dnd41	blood
17	chr3:140788600-140789800	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr3:140788600-140795000	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr3:140788800-140791200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr3:140788800-140791600	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr3:140789000-140790400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr3:140789000-140797600	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr3:140789200-140790600	Enhancers	H1 Cell Line	embryonic stem cell
24	chr3:140789200-140791000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr3:140789400-140790400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr3:140789400-140791400	Enhancers	Brain Germinal Matrix	brain
27	chr3:140789400-140795800	Enhancers	Cortex derived primary cultured neurospheres	brain
28	chr3:140789600-140789800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
29	chr3:140789600-140789800	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
30	chr3:140789600-140789800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
31	chr3:140789600-140790200	Strong transcription	Fetal Stomach	stomach
32	chr3:140789600-140790800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
33	chr3:140789600-140791200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr3:140789600-140791400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr3:140789600-140791400	Genic enhancers	Fetal Muscle Leg	muscle
36	chr3:140789600-140791800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
37	chr3:140789600-140798000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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