Variant report

Variant	rs28374530
Chromosome Location	chr9:97736867-97736868
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97686977..97688717-chr9:97734724..97736919,2	MCF-7	breast:
2	chr9:97687964..97690417-chr9:97736353..97738694,2	MCF-7	breast:
3	chr9:97573279..97576289-chr9:97736282..97739747,3	MCF-7	breast:
4	chr9:97692349..97695282-chr9:97736142..97738350,2	MCF-7	breast:
5	chr9:97734614..97737497-chr9:97742689..97744554,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1004813	1.00[AMR][1000 genomes]
rs10512251	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12684072	1.00[AMR][1000 genomes]
rs12684777	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12685442	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1543848	1.00[AMR][1000 genomes]
rs16911870	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16911899	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55795857	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55932459	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7024881	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7043275	1.00[AMR][1000 genomes]
rs7046628	1.00[AMR][1000 genomes]
rs72750306	1.00[AMR][1000 genomes]
rs72750343	1.00[AMR][1000 genomes]
rs72750345	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72750349	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72750353	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72750354	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72750355	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72750360	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72750361	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72750363	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]

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	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
2	nsv1045849	chr9:97688810-97741336	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97670600-97766000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr9:97713800-97757400	Weak transcription	Fetal Brain Female	brain
3	chr9:97715000-97758200	Weak transcription	Spleen	Spleen
4	chr9:97715200-97748200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr9:97715400-97741200	Weak transcription	Primary B cells from peripheral blood	blood
6	chr9:97715400-97749600	Weak transcription	Thymus	Thymus
7	chr9:97715600-97742000	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr9:97715600-97742000	Weak transcription	Psoas Muscle	Psoas
9	chr9:97715600-97742400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr9:97716000-97742400	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr9:97718800-97744000	Weak transcription	GM12878-XiMat	blood
12	chr9:97719000-97743400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr9:97719000-97745800	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr9:97719400-97737800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr9:97719400-97739800	Weak transcription	Primary T cells from cord blood	blood
16	chr9:97719400-97746200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr9:97719400-97747000	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr9:97719600-97747000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr9:97720800-97741600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr9:97724800-97743000	Weak transcription	Brain Angular Gyrus	brain
21	chr9:97724800-97743000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr9:97726800-97742400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr9:97728000-97742800	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr9:97728000-97754200	Weak transcription	Primary hematopoietic stem cells	blood
25	chr9:97728200-97741400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr9:97730000-97737400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr9:97731600-97743000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr9:97732000-97738000	Enhancers	HepG2	liver
29	chr9:97732600-97739800	Enhancers	Fetal Intestine Large	intestine
30	chr9:97732800-97742400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr9:97733400-97737000	Enhancers	Fetal Heart	heart
32	chr9:97733400-97737200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr9:97733400-97737800	Enhancers	Fetal Muscle Leg	muscle
34	chr9:97733400-97738000	Enhancers	Fetal Stomach	stomach
35	chr9:97733400-97757600	Weak transcription	Esophagus	oesophagus
36	chr9:97733800-97737000	Enhancers	Aorta	Aorta
37	chr9:97733800-97738800	Enhancers	Fetal Kidney	kidney
38	chr9:97734000-97738600	Enhancers	Fetal Muscle Trunk	muscle
39	chr9:97734200-97737000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr9:97734200-97737200	Enhancers	Skeletal Muscle Male	skeletal muscle
41	chr9:97734200-97737600	Enhancers	A549	lung
42	chr9:97734200-97738200	Genic enhancers	HSMMtube	muscle
43	chr9:97734400-97737400	Enhancers	Muscle Satellite Cultured Cells	--
44	chr9:97734400-97739800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr9:97734400-97741200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr9:97734600-97741400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr9:97734600-97757600	Weak transcription	Gastric	stomach
48	chr9:97734800-97738000	Enhancers	Liver	Liver
49	chr9:97734800-97742400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr9:97734800-97743000	Weak transcription	Brain Substantia Nigra	brain

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