Variant report

Variant	rs7019402
Chromosome Location	chr9:16869240-16869241
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10121817	0.85[EUR][1000 genomes]
rs10756819	0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs10810649	0.82[CEU][hapmap];0.88[EUR][1000 genomes]
rs10810651	0.85[AFR][1000 genomes]
rs1339551	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4422864	0.81[AFR][1000 genomes]
rs4961422	0.86[EUR][1000 genomes]
rs61132125	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7046749	0.83[AFR][1000 genomes]
rs7864431	0.91[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024799	chr9:16631890-17431827	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv892650	chr9:16696187-16950860	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv892651	chr9:16816755-16869240	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv892652	chr9:16843128-16958312	Bivalent Enhancer Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
5	nsv892653	chr9:16848790-16895610	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
6	nsv1018615	chr9:16865804-16960970	Active TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
7	nsv540074	chr9:16865804-16960970	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16864800-16869400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:16865000-16869400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:16865000-16869400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr9:16865000-16872000	Active TSS	Stomach Smooth Muscle	stomach
5	chr9:16866400-16871800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr9:16866600-16869600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr9:16866600-16872200	Active TSS	NHLF	lung
8	chr9:16866800-16872000	Active TSS	Duodenum Smooth Muscle	Duodenum
9	chr9:16867400-16870200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr9:16867600-16869400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr9:16867600-16871600	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr9:16867600-16872200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr9:16867600-16872200	Active TSS	Colon Smooth Muscle	Colon
14	chr9:16867600-16872400	Active TSS	Ovary	ovary
15	chr9:16867800-16869800	Flanking Active TSS	NH-A	brain
16	chr9:16867800-16869800	Flanking Active TSS	Osteobl	bone
17	chr9:16867800-16871200	Active TSS	Fetal Stomach	stomach
18	chr9:16868000-16872200	Active TSS	Right Atrium	heart
19	chr9:16868000-16872200	Active TSS	HSMM	muscle
20	chr9:16868200-16869400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr9:16868200-16869600	Enhancers	Psoas Muscle	Psoas
22	chr9:16868200-16872000	Active TSS	HSMMtube	muscle
23	chr9:16868400-16869400	Enhancers	Placenta Amnion	Placenta Amnion
24	chr9:16868400-16869400	Enhancers	A549	lung
25	chr9:16868400-16872400	Active TSS	Rectal Smooth Muscle	rectum
26	chr9:16868600-16869400	Bivalent/Poised TSS	Rectal Mucosa Donor 31	rectum
27	chr9:16868600-16869400	Flanking Active TSS	NHDF-Ad	bronchial
28	chr9:16868600-16869600	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
29	chr9:16868800-16869400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr9:16868800-16869400	Active TSS	Colonic Mucosa	Colon
31	chr9:16868800-16869400	Bivalent/Poised TSS	Fetal Brain Male	brain
32	chr9:16868800-16869400	Flanking Bivalent TSS/Enh	Fetal Lung	lung
33	chr9:16868800-16869400	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
34	chr9:16868800-16869400	Bivalent Enhancer	Dnd41	blood
35	chr9:16868800-16869600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
36	chr9:16868800-16869600	Bivalent Enhancer	Primary hematopoietic stem cells	blood
37	chr9:16868800-16870000	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
38	chr9:16868800-16870600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr9:16868800-16872400	Active TSS	Rectal Mucosa Donor 29	rectum
40	chr9:16869000-16869400	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
41	chr9:16869000-16869400	Active TSS	Fetal Muscle Leg	muscle
42	chr9:16869000-16869600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr9:16869000-16869600	Active TSS	Fetal Muscle Trunk	muscle
44	chr9:16869000-16869800	Flanking Bivalent TSS/Enh	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr9:16869000-16869800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
46	chr9:16869000-16869800	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
47	chr9:16869000-16869800	Bivalent/Poised TSS	Fetal Kidney	kidney
48	chr9:16869000-16870000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
49	chr9:16869000-16870000	Flanking Bivalent TSS/Enh	Fetal Intestine Small	intestine
50	chr9:16869000-16870000	Weak transcription	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links