Variant report

Variant	rs7545098
Chromosome Location	chr1:86830216-86830217
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs5744360	1.00[AMR][1000 genomes]
rs6657379	1.00[AMR][1000 genomes]
rs6677441	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6695743	1.00[AMR][1000 genomes]
rs7516602	1.00[AMR][1000 genomes]
rs7549500	1.00[AMR][1000 genomes]
rs7551595	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv546722	chr1:86278315-86891073	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1003838	chr1:86591841-87212231	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv1002541	chr1:86689088-86905902	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
4	nsv871866	chr1:86726619-86851420	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	1 gene(s)	inside rSNPs	diseases
5	nsv871081	chr1:86806372-86892819	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:86808600-86842800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:86813800-86836400	Weak transcription	Lung	lung
3	chr1:86813800-86842600	Weak transcription	Fetal Heart	heart
4	chr1:86815200-86860200	Weak transcription	Fetal Brain Male	brain
5	chr1:86816000-86842400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr1:86817200-86843800	Weak transcription	Small Intestine	intestine
7	chr1:86817600-86843000	Weak transcription	Brain Cingulate Gyrus	brain
8	chr1:86817800-86835400	Weak transcription	Esophagus	oesophagus
9	chr1:86817800-86840000	Weak transcription	GM12878-XiMat	blood
10	chr1:86817800-86842400	Weak transcription	Rectal Smooth Muscle	rectum
11	chr1:86818000-86842600	Weak transcription	Fetal Intestine Small	intestine
12	chr1:86818000-86843200	Weak transcription	Pancreas	Pancrea
13	chr1:86818000-86851600	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr1:86818200-86841000	Weak transcription	Fetal Kidney	kidney
15	chr1:86819000-86838400	Weak transcription	NHDF-Ad	bronchial
16	chr1:86819800-86839400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr1:86819800-86839400	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr1:86819800-86840200	Weak transcription	Brain Angular Gyrus	brain
19	chr1:86819800-86840200	Weak transcription	HMEC	breast
20	chr1:86819800-86842200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr1:86819800-86842600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr1:86819800-86843000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr1:86819800-86843000	Weak transcription	Fetal Muscle Trunk	muscle
24	chr1:86820200-86840200	Weak transcription	Brain Anterior Caudate	brain
25	chr1:86820200-86841200	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr1:86820200-86842600	Weak transcription	Brain Germinal Matrix	brain
27	chr1:86820200-86843400	Weak transcription	Left Ventricle	heart
28	chr1:86820200-86854400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr1:86820200-86854800	Weak transcription	HSMMtube	muscle
30	chr1:86820400-86835000	Weak transcription	HSMM	muscle
31	chr1:86820400-86838400	Weak transcription	Primary B cells from cord blood	blood
32	chr1:86820400-86838400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr1:86820400-86838400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr1:86820400-86838600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr1:86820400-86839400	Weak transcription	NH-A	brain
36	chr1:86820400-86842400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr1:86820400-86842800	Weak transcription	Fetal Muscle Leg	muscle
38	chr1:86820400-86842800	Weak transcription	Placenta	Placenta
39	chr1:86820400-86845400	Weak transcription	Hela-S3	cervix
40	chr1:86820400-86846200	Weak transcription	NHLF	lung
41	chr1:86820400-86846400	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr1:86820400-86847000	Weak transcription	Liver	Liver
43	chr1:86820400-86848000	Weak transcription	Stomach Smooth Muscle	stomach
44	chr1:86820400-86860200	Weak transcription	NHEK	skin
45	chr1:86820600-86838400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr1:86820600-86839400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr1:86820600-86839400	Weak transcription	Osteobl	bone
48	chr1:86820600-86839600	Weak transcription	Primary hematopoietic stem cells	blood
49	chr1:86820600-86839600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr1:86820600-86840000	Weak transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links