Variant report

Variant	rs9821749
Chromosome Location	chr3:150943085-150943086
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10513387	1.00[ASN][1000 genomes]
rs10513393	0.82[EUR][1000 genomes]
rs13321176	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13322794	1.00[ASN][1000 genomes]
rs1388625	0.80[EUR][1000 genomes]
rs1549829	1.00[ASN][1000 genomes]
rs1554120	1.00[ASN][1000 genomes]
rs16863269	0.84[AFR][1000 genomes]
rs17282940	0.82[EUR][1000 genomes]
rs17282947	0.82[EUR][1000 genomes]
rs17290219	1.00[ASN][1000 genomes]
rs17304673	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1920393	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28386791	0.87[EUR][1000 genomes]
rs28734805	0.84[EUR][1000 genomes]
rs28810515	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28831788	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs55751359	0.80[EUR][1000 genomes]
rs6773020	1.00[ASN][1000 genomes]
rs6780660	0.90[EUR][1000 genomes]
rs6792089	0.90[EUR][1000 genomes]
rs722133	1.00[ASN][1000 genomes]
rs73155751	1.00[ASN][1000 genomes]
rs73155773	1.00[ASN][1000 genomes]
rs73157938	0.91[EUR][1000 genomes]
rs73157954	0.90[EUR][1000 genomes]
rs73157974	0.80[EUR][1000 genomes]
rs73157991	0.80[EUR][1000 genomes]
rs7614811	1.00[ASN][1000 genomes]
rs9812617	0.87[EUR][1000 genomes]
rs9814936	0.90[EUR][1000 genomes]
rs9817216	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9818251	1.00[ASN][1000 genomes]
rs9819885	0.87[EUR][1000 genomes]
rs9821937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9831242	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9834154	0.82[EUR][1000 genomes]
rs9836053	1.00[ASN][1000 genomes]
rs9838990	0.82[EUR][1000 genomes]
rs9840232	0.82[EUR][1000 genomes]
rs9841430	0.86[EUR][1000 genomes]
rs9848789	0.82[EUR][1000 genomes]
rs9850762	1.00[ASN][1000 genomes]
rs9853676	0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9854017	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9854126	1.00[ASN][1000 genomes]
rs9859854	0.90[EUR][1000 genomes]
rs9867524	0.82[EUR][1000 genomes]
rs9868643	0.92[EUR][1000 genomes]
rs9871229	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9871624	0.87[EUR][1000 genomes]
rs9872645	0.82[EUR][1000 genomes]
rs9875587	0.88[EUR][1000 genomes]
rs9876268	0.81[EUR][1000 genomes]
rs9876933	0.82[EUR][1000 genomes]
rs9880395	0.89[EUR][1000 genomes]
rs9881116	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
3	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv3341498	chr3:150942536-150943683	Weak transcription Strong transcription Enhancers Genic enhancers	n/a	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150878000-150946000	Weak transcription	Placenta	Placenta
2	chr3:150928800-150943800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:150928800-150946200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:150928800-150952800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr3:150928800-150953000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:150929000-150943200	Weak transcription	Psoas Muscle	Psoas
7	chr3:150929000-150945200	Weak transcription	Primary B cells from peripheral blood	blood
8	chr3:150929200-150945400	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr3:150932600-150946200	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr3:150935400-150946200	Weak transcription	Aorta	Aorta
11	chr3:150935600-150944000	Weak transcription	Fetal Stomach	stomach
12	chr3:150935600-150945200	Weak transcription	Fetal Muscle Leg	muscle
13	chr3:150935600-150945400	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr3:150937600-150944000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr3:150937600-150944200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr3:150937800-150945200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr3:150938200-150945800	Weak transcription	Fetal Heart	heart
18	chr3:150938600-150948600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr3:150939600-150945200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr3:150939800-150945200	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr3:150940000-150945400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr3:150940000-150945400	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr3:150940000-150945400	Weak transcription	Fetal Intestine Small	intestine
24	chr3:150940400-150945800	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr3:150940600-150943800	Weak transcription	Primary B cells from cord blood	blood
26	chr3:150941400-150945200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr3:150941600-150943600	Weak transcription	Hela-S3	cervix
28	chr3:150941600-150948000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr3:150941800-150945400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr3:150942000-150945200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
31	chr3:150942000-150946800	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr3:150942200-150944200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr3:150942200-150946000	Enhancers	Liver	Liver
34	chr3:150942200-150947000	Enhancers	Primary T cells from cord blood	blood
35	chr3:150942200-150948600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr3:150942400-150943800	Weak transcription	NHLF	lung
37	chr3:150942400-150944200	Enhancers	Primary T helper naive cells from peripheral blood	blood
38	chr3:150942400-150944600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
39	chr3:150942600-150945200	Weak transcription	Brain Anterior Caudate	brain
40	chr3:150942800-150945000	Strong transcription	Primary neutrophils fromperipheralblood	blood
41	chr3:150942800-150945400	Enhancers	NH-A	brain
42	chr3:150942800-150946600	Enhancers	Primary T cells fromperipheralblood	blood
43	chr3:150942800-150947000	Enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr3:150943000-150943200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr3:150943000-150943600	Enhancers	Primary hematopoietic stem cells	blood
46	chr3:150943000-150945200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
47	chr3:150943000-150946800	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr3:150943000-150947800	Weak transcription	Sigmoid Colon	Sigmoid Colon

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