Variant report

Variant	rs1800360
Chromosome Location	chr9:97934367-97934368
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97904743..97906856-chr9:97933205..97935639,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FANCC-2	chr9:97934319-97934429	NONHSAT133362

Variant related genes	Relation type
ENSG00000251884	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1886993	0.83[AMR][1000 genomes]
rs2121200	0.83[AMR][1000 genomes]
rs35108112	0.83[AMR][1000 genomes]
rs4647386	0.83[AMR][1000 genomes]
rs4647455	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.90[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4647473	0.83[AMR][1000 genomes]
rs4647505	0.83[AMR][1000 genomes]
rs57471585	0.83[AMR][1000 genomes]
rs60306328	0.85[AFR][1000 genomes]
rs7034939	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7037729	0.83[AMR][1000 genomes]
rs73528466	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73528478	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73530498	0.83[AMR][1000 genomes]
rs73532103	0.83[AMR][1000 genomes]
rs73532167	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73532195	0.83[AMR][1000 genomes]
rs73532199	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73534887	0.83[AMR][1000 genomes]
rs73534888	0.83[AMR][1000 genomes]
rs73534898	0.83[AMR][1000 genomes]
rs73537212	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73538039	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73539203	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73541330	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7854840	0.83[AMR][1000 genomes]
rs9792481	0.83[AMR][1000 genomes]

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	nsv831656	chr9:97831551-97989980	Weak transcription Strong transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97893800-97940400	Weak transcription	Pancreas	Pancrea
2	chr9:97906600-97950200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr9:97920000-97952000	Weak transcription	Aorta	Aorta
4	chr9:97920000-97952000	Weak transcription	Esophagus	oesophagus
5	chr9:97920400-97951800	Weak transcription	HepG2	liver
6	chr9:97925800-97938000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr9:97925800-97944800	Weak transcription	Duodenum Mucosa	Duodenum
8	chr9:97926000-97937800	Weak transcription	Psoas Muscle	Psoas
9	chr9:97926400-97934400	Weak transcription	Primary B cells from cord blood	blood
10	chr9:97927600-97950400	Weak transcription	Primary hematopoietic stem cells	blood
11	chr9:97930000-97945200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr9:97930000-97945400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr9:97930600-97939400	Weak transcription	Fetal Muscle Leg	muscle
14	chr9:97930600-97943400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr9:97930600-97944800	Weak transcription	Lung	lung
16	chr9:97930600-97950400	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr9:97930600-97950800	Weak transcription	Thymus	Thymus
18	chr9:97930600-97952000	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr9:97930800-97940400	Weak transcription	Fetal Thymus	thymus
20	chr9:97930800-97941600	Weak transcription	Liver	Liver
21	chr9:97930800-97951600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr9:97930800-97952400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr9:97931200-97937800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr9:97931200-97940000	Weak transcription	Fetal Intestine Small	intestine
25	chr9:97931800-97937800	Weak transcription	Fetal Muscle Trunk	muscle
26	chr9:97932000-97935000	Enhancers	Pancreatic Islets	Pancreatic Islet
27	chr9:97932200-97944800	Weak transcription	Primary T cells from cord blood	blood
28	chr9:97932200-97945000	Weak transcription	Fetal Intestine Large	intestine
29	chr9:97933000-97934400	Enhancers	ES-I3 Cell Line	embryonic stem cell
30	chr9:97933200-97934400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr9:97933200-97950600	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr9:97933400-97934400	Enhancers	HUVEC	blood vessel
33	chr9:97933400-97938000	Weak transcription	Stomach Smooth Muscle	stomach
34	chr9:97933400-97945400	Weak transcription	Fetal Kidney	kidney
35	chr9:97933600-97937000	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr9:97933600-97938800	Weak transcription	Hela-S3	cervix
37	chr9:97933600-97944200	Weak transcription	Fetal Stomach	stomach
38	chr9:97933800-97938000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr9:97933800-97938200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr9:97933800-97939400	Weak transcription	Fetal Lung	lung
41	chr9:97934000-97935400	Weak transcription	Fetal Heart	heart
42	chr9:97934200-97935200	Weak transcription	Ovary	ovary
43	chr9:97934200-97937800	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr9:97934200-97937800	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr9:97934200-97937800	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr9:97934200-97937800	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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