Variant report

Variant	rs3780421
Chromosome Location	chr9:101143028-101143029
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:101141985..101144265-chr9:101150163..101153760,3	K562	blood:
2	chr9:101142401..101145561-chr9:101146082..101148768,4	K562	blood:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10115570	1.00[CEU][hapmap]
rs10118761	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10120040	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10120099	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10122943	1.00[CEU][hapmap]
rs10760298	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10818832	0.93[CEU][hapmap]
rs10818833	0.93[CEU][hapmap]
rs10818857	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10818863	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10818876	1.00[CEU][hapmap];0.87[AMR][1000 genomes]
rs10986060	0.93[CEU][hapmap]
rs10986084	1.00[CEU][hapmap];0.90[CHB][hapmap];0.87[ASN][1000 genomes]
rs12340823	0.93[CEU][hapmap]
rs12352641	1.00[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12352643	1.00[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16915331	0.93[CEU][hapmap]
rs17696686	1.00[CEU][hapmap];0.90[CHB][hapmap];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17768880	0.91[CEU][hapmap]
rs2304388	1.00[CEU][hapmap];0.90[CHB][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56281459	0.91[ASN][1000 genomes]
rs57298260	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7029062	0.83[CEU][hapmap];0.85[CHB][hapmap]
rs7031472	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs7032844	1.00[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7041599	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7042831	0.93[CEU][hapmap];0.80[CHB][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7044824	1.00[CEU][hapmap];0.90[CHB][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7044961	1.00[CEU][hapmap];0.90[CHB][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7045221	0.84[ASN][1000 genomes]
rs7046871	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs724890	1.00[CEU][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9886725	1.00[CEU][hapmap]
rs9886874	0.93[CEU][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	nsv430085	chr9:100928245-101339645	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv831664	chr9:101024862-101205637	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101128200-101164200	Weak transcription	Brain Germinal Matrix	brain
2	chr9:101129000-101156000	Weak transcription	Fetal Brain Female	brain
3	chr9:101136800-101144600	Enhancers	Primary B cells from peripheral blood	blood
4	chr9:101137000-101145000	Enhancers	Primary B cells from cord blood	blood
5	chr9:101140600-101143200	Enhancers	K562	blood
6	chr9:101142000-101143200	Enhancers	NHDF-Ad	bronchial
7	chr9:101142200-101143200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
8	chr9:101142200-101143200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr9:101142200-101143200	Enhancers	Muscle Satellite Cultured Cells	--
10	chr9:101142200-101143200	Enhancers	Fetal Kidney	kidney
11	chr9:101142200-101143200	Enhancers	Osteobl	bone
12	chr9:101142200-101143400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr9:101142200-101143400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr9:101142200-101143400	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr9:101142400-101143200	Enhancers	ES-I3 Cell Line	embryonic stem cell
16	chr9:101142400-101143200	Enhancers	H1 Cell Line	embryonic stem cell
17	chr9:101142400-101143200	Enhancers	iPS-15b Cell Line	embryonic stem cell
18	chr9:101142400-101143200	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr9:101142400-101143200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr9:101142400-101143200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr9:101142400-101143200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
22	chr9:101142400-101143200	Enhancers	Cortex derived primary cultured neurospheres	brain
23	chr9:101142400-101143200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr9:101142400-101143200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr9:101142400-101143200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
26	chr9:101142400-101143200	Enhancers	Fetal Muscle Leg	muscle
27	chr9:101142400-101143200	Enhancers	Fetal Stomach	stomach
28	chr9:101142400-101143200	Enhancers	Placenta Amnion	Placenta Amnion
29	chr9:101142400-101143200	Enhancers	NH-A	brain
30	chr9:101142400-101143200	Enhancers	NHLF	lung
31	chr9:101142400-101143400	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr9:101142400-101143400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
33	chr9:101142400-101143400	Enhancers	Spleen	Spleen
34	chr9:101142400-101143600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr9:101142400-101143600	Enhancers	Placenta	Placenta
36	chr9:101142400-101143600	Enhancers	Lung	lung
37	chr9:101142400-101144600	Enhancers	GM12878-XiMat	blood
38	chr9:101142600-101143400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr9:101142600-101143600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr9:101142600-101143600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr9:101142600-101143600	Enhancers	Brain Cingulate Gyrus	brain
42	chr9:101142600-101144400	Enhancers	Brain Angular Gyrus	brain
43	chr9:101142800-101143400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
44	chr9:101142800-101143400	Enhancers	Fetal Intestine Small	intestine
45	chr9:101142800-101143800	Enhancers	Fetal Muscle Trunk	muscle
46	chr9:101143000-101143600	Enhancers	Fetal Intestine Large	intestine
47	chr9:101143000-101144000	Enhancers	Brain Inferior Temporal Lobe	brain
48	chr9:101143000-101144200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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