Variant report

Variant	rs1538735
Chromosome Location	chr9:18443060-18443061
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	chr9:18254805..18255425-chr9:18442379..18443060,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10511638	0.91[CEU][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10511655	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10511657	0.89[CEU][hapmap];1.00[GIH][hapmap];0.88[TSI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10963615	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11788016	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11788507	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11789771	0.91[CEU][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11789989	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11792038	0.91[CEU][hapmap];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11793618	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11794163	0.91[CEU][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16936729	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16936798	0.91[CEU][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17205346	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17205381	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17205520	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17205912	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17206286	0.91[CEU][hapmap];0.83[GIH][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17206601	0.91[CEU][hapmap];0.83[GIH][hapmap];0.88[TSI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17206657	0.91[CEU][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17206965	0.91[CEU][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17207028	0.91[CEU][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17207294	0.91[CEU][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17799670	1.00[ASN][1000 genomes]
rs17801150	0.91[CEU][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17801409	0.91[CEU][hapmap];0.88[TSI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1832637	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1832746	0.91[CEU][hapmap];0.88[TSI][hapmap];0.89[EUR][1000 genomes]
rs2153419	0.92[EUR][1000 genomes]
rs7031222	0.91[CEU][hapmap];0.85[EUR][1000 genomes]
rs725837	0.91[EUR][1000 genomes]
rs7863523	0.91[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831522	chr9:18231982-18459492	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv491807	chr9:18243672-19009770	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	esv2764161	chr9:18247433-18443060	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv525659	chr9:18288212-19009041	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv1019127	chr9:18288271-18996288	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv892688	chr9:18385143-18551247	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv1029449	chr9:18414752-18829127	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
8	nsv540077	chr9:18414752-18829127	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
9	nsv1030931	chr9:18414752-18903530	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:18439000-18446800	Weak transcription	NHLF	lung
2	chr9:18439200-18446600	Weak transcription	Rectal Smooth Muscle	rectum
3	chr9:18439200-18447200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr9:18439200-18447200	Weak transcription	Fetal Lung	lung
5	chr9:18439200-18447200	Weak transcription	Left Ventricle	heart
6	chr9:18439200-18447200	Weak transcription	Lung	lung
7	chr9:18439200-18447400	Weak transcription	Right Atrium	heart
8	chr9:18439200-18447600	Weak transcription	Brain Cingulate Gyrus	brain
9	chr9:18439400-18446600	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr9:18439400-18446800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr9:18441000-18443600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr9:18441200-18443200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr9:18441400-18443200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr9:18441400-18443400	Enhancers	Muscle Satellite Cultured Cells	--
15	chr9:18441400-18443400	Enhancers	Colon Smooth Muscle	Colon
16	chr9:18441400-18443400	Enhancers	NHDF-Ad	bronchial
17	chr9:18441400-18443400	Enhancers	Osteobl	bone
18	chr9:18442000-18443200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr9:18442200-18443200	Enhancers	NH-A	brain
20	chr9:18442200-18443600	Enhancers	HUVEC	blood vessel
21	chr9:18442200-18446600	Weak transcription	Stomach Smooth Muscle	stomach
22	chr9:18442400-18443400	Enhancers	HMEC	breast
23	chr9:18442400-18443400	Enhancers	NHEK	skin
24	chr9:18442600-18447200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr9:18442800-18443200	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr9:18442800-18443200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr9:18442800-18443200	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr9:18442800-18443200	Enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr9:18442800-18443200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr9:18442800-18443200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr9:18442800-18443200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr9:18442800-18443200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr9:18442800-18443200	Enhancers	Aorta	Aorta
34	chr9:18442800-18443200	Enhancers	Liver	Liver
35	chr9:18442800-18443200	Enhancers	Brain Hippocampus Middle	brain
36	chr9:18442800-18443200	Enhancers	Hela-S3	cervix
37	chr9:18442800-18443600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr9:18442800-18444000	Enhancers	Fetal Heart	heart
39	chr9:18443000-18447600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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