Variant report

Variant	rs10739991
Chromosome Location	chr9:97664568-97664569
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97655373..97657795-chr9:97662890..97664945,2	MCF-7	breast:
2	chr9:97663421..97665287-chr9:97685547..97688142,2	MCF-7	breast:
3	chr9:97663154..97665025-chr9:97680451..97683627,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 102 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs1004813	1.00[JPT][hapmap]
rs10121865	0.86[YRI][hapmap]
rs10125566	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10217441	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10512252	1.00[JPT][hapmap]
rs10732407	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10739988	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10739990	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10761355	0.85[YRI][hapmap]
rs10761362	0.89[AMR][1000 genomes]
rs10761363	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10821407	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10821411	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10993386	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1113967	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12551506	0.82[JPT][hapmap]
rs12554043	1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12682668	1.00[JPT][hapmap]
rs12684072	1.00[JPT][hapmap]
rs12684139	1.00[JPT][hapmap]
rs12684154	1.00[JPT][hapmap]
rs12684461	1.00[JPT][hapmap]
rs12684470	1.00[JPT][hapmap]
rs12684781	1.00[JPT][hapmap]
rs12686277	1.00[JPT][hapmap]
rs12686500	1.00[JPT][hapmap]
rs1530331	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1542107	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1542108	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1571897	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs16905557	1.00[JPT][hapmap]
rs16911801	1.00[JPT][hapmap]
rs16911802	1.00[JPT][hapmap]
rs16911817	1.00[JPT][hapmap]
rs16911820	1.00[JPT][hapmap]
rs16911821	1.00[JPT][hapmap]
rs16911826	1.00[JPT][hapmap]
rs1806996	1.00[JPT][hapmap]
rs187163	0.85[YRI][hapmap]
rs1904201	0.82[JPT][hapmap];0.85[YRI][hapmap];0.85[AFR][1000 genomes]
rs2026399	0.82[JPT][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes]
rs2078379	1.00[JPT][hapmap]
rs2095069	0.82[JPT][hapmap]
rs2119953	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2406897	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2406898	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2767404	0.84[YRI][hapmap]
rs2897523	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs356123	0.85[YRI][hapmap]
rs3824493	1.00[JPT][hapmap]
rs3847309	1.00[JPT][hapmap]
rs3847310	1.00[JPT][hapmap]
rs3847311	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3858087	0.85[YRI][hapmap]
rs3886567	1.00[JPT][hapmap]
rs3886568	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3910730	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs397617	0.83[YRI][hapmap]
rs400231	0.85[YRI][hapmap]
rs4332191	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4537361	0.86[YRI][hapmap]
rs471161	0.83[YRI][hapmap]
rs4743972	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4743973	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4743976	1.00[CEU][hapmap]
rs4744387	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4744389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6479568	1.00[JPT][hapmap]
rs6479576	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6479578	0.85[EUR][1000 genomes]
rs6479579	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6479581	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6479582	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6479583	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6479589	1.00[CEU][hapmap]
rs66993340	0.84[AFR][1000 genomes]
rs7019602	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7022739	1.00[CEU][hapmap]
rs7022963	0.85[EUR][1000 genomes]
rs7025100	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7025934	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs7026714	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7029570	0.82[JPT][hapmap];0.89[ASN][1000 genomes]
rs7031637	0.80[AMR][1000 genomes]
rs7035166	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7038519	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7044371	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7045005	1.00[JPT][hapmap]
rs732141	0.85[YRI][hapmap]
rs7465900	1.00[JPT][hapmap]
rs7850601	1.00[JPT][hapmap]
rs7850680	1.00[JPT][hapmap]
rs7852844	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7853126	0.83[YRI][hapmap]
rs7864389	0.81[AMR][1000 genomes]
rs7867856	0.85[EUR][1000 genomes]
rs7869736	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7870679	1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs894426	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs894427	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs894428	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][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	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:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97633400-97671800	Weak transcription	Esophagus	oesophagus
2	chr9:97655800-97668400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr9:97656400-97669000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:97658800-97668400	Weak transcription	Pancreas	Pancrea
5	chr9:97660800-97702400	Weak transcription	Primary B cells from cord blood	blood
6	chr9:97661000-97666000	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr9:97661600-97686200	Weak transcription	Primary T cells from cord blood	blood
8	chr9:97661800-97665200	Flanking Active TSS	A549	lung
9	chr9:97662200-97665200	Enhancers	Placenta Amnion	Placenta Amnion
10	chr9:97662400-97664800	Enhancers	Brain Angular Gyrus	brain
11	chr9:97662400-97664800	Enhancers	Brain Cingulate Gyrus	brain
12	chr9:97662400-97665000	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr9:97662400-97665000	Enhancers	HMEC	breast
14	chr9:97662400-97665200	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr9:97662400-97665600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr9:97662400-97666200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
17	chr9:97662400-97678600	Enhancers	Brain Substantia Nigra	brain
18	chr9:97662600-97669600	Weak transcription	Right Atrium	heart
19	chr9:97662600-97670000	Weak transcription	Fetal Intestine Small	intestine
20	chr9:97662600-97680400	Enhancers	Brain Hippocampus Middle	brain
21	chr9:97662800-97664800	Enhancers	Rectal Smooth Muscle	rectum
22	chr9:97662800-97665400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr9:97662800-97669200	Weak transcription	Lung	lung
24	chr9:97662800-97670000	Weak transcription	Fetal Intestine Large	intestine
25	chr9:97663200-97664800	Enhancers	Ovary	ovary
26	chr9:97663200-97664800	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr9:97663200-97665000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr9:97663200-97665200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr9:97663200-97665400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr9:97663200-97666600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr9:97663400-97664800	Enhancers	NH-A	brain
32	chr9:97663400-97665000	Enhancers	Pancreatic Islets	Pancreatic Islet
33	chr9:97663400-97665000	Enhancers	Fetal Lung	lung
34	chr9:97663400-97665000	Enhancers	Hela-S3	cervix
35	chr9:97663400-97665600	Enhancers	NHEK	skin
36	chr9:97663400-97666400	Enhancers	NHDF-Ad	bronchial
37	chr9:97663400-97666400	Enhancers	Osteobl	bone
38	chr9:97663400-97667400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr9:97663400-97667600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr9:97663400-97669000	Weak transcription	Fetal Muscle Leg	muscle
41	chr9:97663400-97669200	Weak transcription	Fetal Heart	heart
42	chr9:97663400-97671200	Enhancers	HepG2	liver
43	chr9:97663600-97664800	Enhancers	iPS-20b Cell Line	embryonic stem cell
44	chr9:97663600-97665000	Enhancers	iPS-15b Cell Line	embryonic stem cell
45	chr9:97663600-97668000	Enhancers	NHLF	lung
46	chr9:97663600-97669000	Weak transcription	Stomach Smooth Muscle	stomach
47	chr9:97663600-97669600	Weak transcription	Fetal Stomach	stomach
48	chr9:97663800-97664600	Weak transcription	Adipose Nuclei	Adipose
49	chr9:97663800-97664600	Enhancers	Stomach Mucosa	stomach
50	chr9:97663800-97664800	Enhancers	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links