Variant report

Variant	rs7041360
Chromosome Location	chr9:116784805-116784806
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	chr9:116778931..116781819-chr9:116782880..116785170,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10739398	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs10759675	0.95[EUR][1000 genomes]
rs10759676	1.00[CEU][hapmap];0.91[TSI][hapmap];0.97[EUR][1000 genomes]
rs10759677	0.94[CHB][hapmap];0.86[ASN][1000 genomes]
rs10817552	0.97[EUR][1000 genomes]
rs10817555	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs10817556	0.99[EUR][1000 genomes]
rs10817558	0.93[EUR][1000 genomes]
rs10982026	0.92[EUR][1000 genomes]
rs10982029	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs10982031	1.00[CEU][hapmap];0.94[TSI][hapmap];0.98[EUR][1000 genomes]
rs10982032	0.98[EUR][1000 genomes]
rs10982034	0.99[EUR][1000 genomes]
rs10982042	0.88[CEU][hapmap];0.92[EUR][1000 genomes]
rs11788633	1.00[CEU][hapmap];0.85[TSI][hapmap];0.95[EUR][1000 genomes]
rs11788661	1.00[CEU][hapmap];0.85[TSI][hapmap];0.95[EUR][1000 genomes]
rs11788667	0.96[EUR][1000 genomes]
rs11790678	0.92[EUR][1000 genomes]
rs11791230	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs12238713	0.93[CHB][hapmap];0.84[ASN][1000 genomes]
rs12551686	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs12686226	0.88[CEU][hapmap];0.93[EUR][1000 genomes]
rs12686727	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs13298270	1.00[CEU][hapmap];0.91[TSI][hapmap];0.97[EUR][1000 genomes]
rs1590367	0.88[CEU][hapmap];0.93[EUR][1000 genomes]
rs2025391	0.94[CHB][hapmap];0.85[CHD][hapmap];0.87[ASN][1000 genomes]
rs2078305	0.88[CEU][hapmap];0.93[EUR][1000 genomes]
rs35841848	0.93[EUR][1000 genomes]
rs3748182	0.97[EUR][1000 genomes]
rs3748183	0.97[EUR][1000 genomes]
rs3860174	0.88[CEU][hapmap];0.91[EUR][1000 genomes]
rs4978561	1.00[CEU][hapmap];0.88[TSI][hapmap];0.95[EUR][1000 genomes]
rs4978562	1.00[CEU][hapmap];0.88[TSI][hapmap];0.95[EUR][1000 genomes]
rs4979317	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs4979318	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs4979319	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs4979320	1.00[CEU][hapmap];0.88[TSI][hapmap];0.95[EUR][1000 genomes]
rs4979322	0.97[EUR][1000 genomes]
rs4979326	1.00[CEU][hapmap];0.97[TSI][hapmap];0.99[EUR][1000 genomes]
rs4979327	1.00[CEU][hapmap];0.97[TSI][hapmap];0.99[EUR][1000 genomes]
rs7030167	0.86[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[CHD][hapmap];0.88[GIH][hapmap];0.89[JPT][hapmap];0.93[LWK][hapmap];0.95[MKK][hapmap];0.94[TSI][hapmap];0.89[YRI][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7035891	0.92[EUR][1000 genomes]
rs7041524	1.00[CEU][hapmap];0.94[TSI][hapmap];0.98[EUR][1000 genomes]
rs7042021	1.00[CEU][hapmap];0.97[EUR][1000 genomes]
rs7858120	1.00[CEU][hapmap];0.88[TSI][hapmap];0.95[EUR][1000 genomes]
rs942286	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs942287	1.00[CEU][hapmap];0.95[EUR][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	nsv430093	chr9:116330446-117325446	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
2	nsv521362	chr9:116782921-116785558	Weak transcription ZNF genes & repeats Strong transcription Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116733400-116800200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:116764600-116797200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr9:116766000-116792600	Weak transcription	Stomach Mucosa	stomach
4	chr9:116766000-116798000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr9:116766200-116799000	Weak transcription	Rectal Smooth Muscle	rectum
6	chr9:116766600-116811200	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr9:116767200-116785800	Weak transcription	Brain Cingulate Gyrus	brain
8	chr9:116768400-116794600	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr9:116769400-116790400	Weak transcription	Right Ventricle	heart
10	chr9:116773600-116809200	Weak transcription	Fetal Heart	heart
11	chr9:116774000-116791200	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr9:116774000-116791200	Weak transcription	Fetal Brain Male	brain
13	chr9:116774200-116798400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr9:116774600-116790400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr9:116776200-116789800	Strong transcription	HUVEC	blood vessel
16	chr9:116777800-116785000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr9:116778000-116785200	Strong transcription	NHDF-Ad	bronchial
18	chr9:116778400-116785000	Strong transcription	Primary hematopoietic stem cells	blood
19	chr9:116778400-116785400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr9:116780200-116798600	Weak transcription	Colonic Mucosa	Colon
21	chr9:116780600-116796800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr9:116780800-116786800	Weak transcription	Left Ventricle	heart
23	chr9:116780800-116788000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr9:116780800-116788000	Weak transcription	Spleen	Spleen
25	chr9:116780800-116791000	Weak transcription	Gastric	stomach
26	chr9:116780800-116791000	Weak transcription	Pancreas	Pancrea
27	chr9:116780800-116791200	Weak transcription	Thymus	Thymus
28	chr9:116780800-116792800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr9:116780800-116796800	Weak transcription	Brain Angular Gyrus	brain
30	chr9:116780800-116798000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr9:116780800-116800200	Weak transcription	Esophagus	oesophagus
32	chr9:116781000-116785000	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr9:116781000-116785000	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr9:116781000-116786800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr9:116781000-116787200	Weak transcription	NHLF	lung
36	chr9:116781000-116787800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr9:116781000-116790800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr9:116781000-116790800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr9:116781000-116797600	Weak transcription	Duodenum Mucosa	Duodenum
40	chr9:116781200-116785000	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr9:116781200-116785000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
42	chr9:116781200-116788000	Weak transcription	Aorta	Aorta
43	chr9:116781400-116785200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr9:116781400-116786600	Weak transcription	Fetal Intestine Small	intestine
45	chr9:116781400-116786800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr9:116781400-116789200	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr9:116781400-116790600	Weak transcription	Lung	lung
48	chr9:116781600-116787200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr9:116781800-116786800	Weak transcription	Fetal Stomach	stomach
50	chr9:116782000-116785000	Strong transcription	HSMM	muscle

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