Variant report

Variant	rs4744403
Chromosome Location	chr9:97670558-97670559
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:97580281..97582910-chr9:97669782..97672711,3	MCF-7	breast:
2	chr9:97668825..97671270-chr9:97677329..97679201,2	MCF-7	breast:
3	chr9:97668411..97670589-chr9:97765288..97767393,2	MCF-7	breast:
4	chr9:97670511..97672510-chr9:97682637..97684241,2	K562	blood:
5	chr9:97666485..97669668-chr9:97669881..97673620,4	MCF-7	breast:
6	chr9:97562492..97588737-chr9:97670126..97691056,102	MCF-7	breast:
7	chr9:97667630..97670627-chr9:97680732..97685586,5	MCF-7	breast:
8	chr9:97670509..97672235-chr9:97673084..97674732,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000230815	Chromatin interaction
ENSG00000252153	Chromatin interaction
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10821401	0.84[EUR][1000 genomes]
rs10821415	0.96[CEU][hapmap]
rs10993365	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10993370	0.87[CEU][hapmap];0.85[JPT][hapmap]
rs10993372	1.00[CEU][hapmap];0.81[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10993377	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10993394	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10993397	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10993398	0.96[CEU][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10993418	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1123534	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11787821	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12235316	0.96[CEU][hapmap];0.84[YRI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1751434	0.82[EUR][1000 genomes]
rs183066	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs2183958	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2584806	0.96[CEU][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs356131	1.00[CEU][hapmap]
rs368138	0.81[EUR][1000 genomes]
rs391784	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs4385527	1.00[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs446540	0.96[CEU][hapmap];0.91[YRI][hapmap];0.81[EUR][1000 genomes]
rs4744369	0.96[CEU][hapmap]
rs4744378	1.00[CEU][hapmap]
rs4744411	0.96[CEU][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7851726	0.96[CEU][hapmap];0.91[YRI][hapmap]
rs7853195	0.96[CEU][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7864171	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7865239	0.96[CEU][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7866848	0.96[CEU][hapmap]

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	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

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97633400-97671800	Weak transcription	Esophagus	oesophagus
2	chr9:97660800-97702400	Weak transcription	Primary B cells from cord blood	blood
3	chr9:97661600-97686200	Weak transcription	Primary T cells from cord blood	blood
4	chr9:97662400-97678600	Enhancers	Brain Substantia Nigra	brain
5	chr9:97662600-97680400	Enhancers	Brain Hippocampus Middle	brain
6	chr9:97663400-97671200	Enhancers	HepG2	liver
7	chr9:97664800-97671800	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr9:97664800-97672000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr9:97664800-97672200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr9:97664800-97673400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr9:97664800-97673400	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr9:97664800-97674200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr9:97665200-97674200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr9:97665400-97674200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr9:97666000-97672000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr9:97666000-97678600	Enhancers	Brain Cingulate Gyrus	brain
17	chr9:97666600-97674400	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr9:97667400-97674600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr9:97667800-97675200	Enhancers	Brain Anterior Caudate	brain
20	chr9:97668000-97672800	Weak transcription	Brain Germinal Matrix	brain
21	chr9:97668200-97671000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr9:97668400-97670800	Enhancers	Ovary	ovary
23	chr9:97668400-97670800	Enhancers	Pancreas	Pancrea
24	chr9:97668400-97671200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr9:97668800-97671200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr9:97668800-97672000	Enhancers	Brain Inferior Temporal Lobe	brain
27	chr9:97669000-97670600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr9:97669000-97670600	Enhancers	Left Ventricle	heart
29	chr9:97669000-97670800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr9:97669000-97670800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
31	chr9:97669000-97670800	Enhancers	Fetal Kidney	kidney
32	chr9:97669000-97670800	Enhancers	Placenta	Placenta
33	chr9:97669000-97670800	Enhancers	Stomach Smooth Muscle	stomach
34	chr9:97669000-97671000	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr9:97669000-97671000	Enhancers	Brain Angular Gyrus	brain
36	chr9:97669000-97671200	Enhancers	HSMM	muscle
37	chr9:97669000-97671600	Enhancers	Fetal Muscle Leg	muscle
38	chr9:97669000-97673000	Enhancers	Stomach Mucosa	stomach
39	chr9:97669000-97673600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr9:97669000-97675200	Enhancers	Fetal Lung	lung
41	chr9:97669000-97678200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr9:97669200-97670600	Enhancers	Lung	lung
43	chr9:97669200-97670600	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr9:97669200-97670800	Enhancers	Pancreatic Islets	Pancreatic Islet
45	chr9:97669200-97670800	Enhancers	Placenta Amnion	Placenta Amnion
46	chr9:97669200-97672400	Weak transcription	Spleen	Spleen
47	chr9:97669200-97678400	Enhancers	Fetal Heart	heart
48	chr9:97669400-97670600	Enhancers	Aorta	Aorta
49	chr9:97669400-97670600	Enhancers	Osteobl	bone
50	chr9:97669400-97670800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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