Variant report

Variant	rs4744499
Chromosome Location	chr9:92766277-92766278
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	chr9:92217272..92218834-chr9:92763919..92766631,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10116454	0.92[CEU][hapmap]
rs10991740	0.86[CEU][hapmap];0.83[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs10991742	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs10991751	0.83[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs10991758	0.81[EUR][1000 genomes]
rs10991799	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs10991819	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs10993742	0.82[EUR][1000 genomes]
rs10993743	0.82[EUR][1000 genomes]
rs12685019	0.85[ASN][1000 genomes]
rs12685781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13299384	0.81[EUR][1000 genomes]
rs13301471	0.92[CEU][hapmap]
rs16906087	0.92[CEU][hapmap];0.83[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs16906093	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs34473649	0.81[EUR][1000 genomes]
rs34954114	0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4744002	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4744025	0.81[EUR][1000 genomes]
rs4744027	0.81[EUR][1000 genomes]
rs4744515	0.80[EUR][1000 genomes]
rs62558472	0.82[EUR][1000 genomes]
rs62558473	0.82[EUR][1000 genomes]
rs662867	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7027794	0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9650758	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv893561	chr9:92732368-92802101	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv482303	chr9:92752928-92890226	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:92757400-92770000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr9:92757600-92770000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr9:92758800-92767600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr9:92761200-92767400	Enhancers	Fetal Muscle Leg	muscle
5	chr9:92761600-92766400	Enhancers	Fetal Stomach	stomach
6	chr9:92761800-92766600	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr9:92762400-92766600	Enhancers	Colon Smooth Muscle	Colon
8	chr9:92762600-92766400	Enhancers	Brain Substantia Nigra	brain
9	chr9:92762600-92766400	Enhancers	HSMM	muscle
10	chr9:92762600-92766600	Enhancers	HSMMtube	muscle
11	chr9:92762600-92769600	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr9:92762800-92769600	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr9:92763000-92766600	Enhancers	Duodenum Smooth Muscle	Duodenum
14	chr9:92763000-92766600	Enhancers	Left Ventricle	heart
15	chr9:92763000-92766600	Enhancers	Pancreas	Pancrea
16	chr9:92763000-92766600	Enhancers	Rectal Smooth Muscle	rectum
17	chr9:92763000-92766800	Enhancers	Skeletal Muscle Female	skeletal muscle
18	chr9:92763000-92768000	Enhancers	Ovary	ovary
19	chr9:92763400-92767200	Weak transcription	Primary B cells from cord blood	blood
20	chr9:92763600-92769800	Weak transcription	Gastric	stomach
21	chr9:92763600-92769800	Weak transcription	NHDF-Ad	bronchial
22	chr9:92763800-92766600	Enhancers	Fetal Muscle Trunk	muscle
23	chr9:92764200-92766400	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr9:92764200-92766600	Enhancers	Fetal Brain Female	brain
25	chr9:92764200-92771200	Weak transcription	Monocytes-CD14+_RO01746	blood
26	chr9:92764400-92766400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr9:92764600-92766400	Enhancers	Adipose Nuclei	Adipose
28	chr9:92764600-92766600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr9:92764800-92769800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr9:92765000-92769800	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr9:92765000-92770000	Weak transcription	H1 Cell Line	embryonic stem cell
32	chr9:92765000-92770400	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr9:92765200-92767000	Enhancers	Brain Germinal Matrix	brain
34	chr9:92765200-92767200	Enhancers	Skeletal Muscle Male	skeletal muscle
35	chr9:92765200-92767600	Weak transcription	Placenta	Placenta
36	chr9:92765200-92769800	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr9:92765200-92771400	Weak transcription	Colonic Mucosa	Colon
38	chr9:92765400-92766400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr9:92765400-92767600	Weak transcription	Fetal Intestine Small	intestine
40	chr9:92765400-92769000	Weak transcription	Stomach Mucosa	stomach
41	chr9:92765400-92769400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr9:92765400-92769800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr9:92765400-92769800	Weak transcription	Fetal Intestine Large	intestine
44	chr9:92765600-92766600	Weak transcription	Brain Angular Gyrus	brain
45	chr9:92765600-92766800	Enhancers	Brain Hippocampus Middle	brain
46	chr9:92765800-92766600	Enhancers	Aorta	Aorta
47	chr9:92765800-92767000	Weak transcription	Brain Cingulate Gyrus	brain
48	chr9:92765800-92767000	Weak transcription	Fetal Lung	lung
49	chr9:92765800-92767000	Enhancers	Stomach Smooth Muscle	stomach
50	chr9:92765800-92775200	Weak transcription	Duodenum Mucosa	Duodenum

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