Variant report

Variant	rs4682240
Chromosome Location	chr3:110892394-110892395
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12485668	0.87[AMR][1000 genomes]
rs1477841	0.80[AMR][1000 genomes]
rs1477842	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2169643	0.87[AMR][1000 genomes]
rs6437955	0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs66803420	0.80[AMR][1000 genomes]
rs6786854	0.95[ASN][1000 genomes]
rs7430600	0.96[ASN][1000 genomes]
rs7653595	0.80[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	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv829675	chr3:110885605-111101858	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv877339	chr3:110889974-111070554	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr3:110816000-110893400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:110829400-110893400	Weak transcription	HUVEC	blood vessel
3	chr3:110832200-110892400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:110832400-110911200	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr3:110835600-110929600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr3:110842600-110911200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr3:110847000-110911400	Weak transcription	Fetal Muscle Leg	muscle
8	chr3:110853000-110919600	Weak transcription	Fetal Brain Male	brain
9	chr3:110853200-110897000	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr3:110853200-110911000	Weak transcription	NH-A	brain
11	chr3:110869400-110929000	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr3:110871000-110914200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:110871200-110896400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr3:110872200-110913800	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr3:110872600-110918800	Weak transcription	Colon Smooth Muscle	Colon
16	chr3:110872800-110893400	Weak transcription	Gastric	stomach
17	chr3:110872800-110896000	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr3:110874200-110893400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr3:110874200-110893400	Weak transcription	Fetal Intestine Small	intestine
20	chr3:110874200-110894200	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr3:110874200-110912000	Weak transcription	Stomach Smooth Muscle	stomach
22	chr3:110874400-110911800	Weak transcription	Left Ventricle	heart
23	chr3:110874800-110913000	Weak transcription	Fetal Muscle Trunk	muscle
24	chr3:110875200-110897600	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr3:110880600-110903600	Weak transcription	Fetal Kidney	kidney
26	chr3:110880800-110892800	Weak transcription	Fetal Stomach	stomach
27	chr3:110881000-110892400	Weak transcription	A549	lung
28	chr3:110881000-110928000	Weak transcription	Osteobl	bone
29	chr3:110882000-110892800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr3:110883800-110908400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr3:110888400-110892400	Strong transcription	NHDF-Ad	bronchial
32	chr3:110889000-110893800	Strong transcription	Dnd41	blood
33	chr3:110889000-110894600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr3:110890000-110894800	Strong transcription	HSMM	muscle
35	chr3:110890200-110913200	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr3:110890400-110892800	Weak transcription	Pancreas	Pancrea
37	chr3:110890400-110893400	Weak transcription	Aorta	Aorta
38	chr3:110890800-110894200	Strong transcription	Duodenum Mucosa	Duodenum
39	chr3:110890800-110919800	Weak transcription	Brain Hippocampus Middle	brain
40	chr3:110891600-110892400	Strong transcription	Liver	Liver
41	chr3:110891600-110892800	Enhancers	iPS-18 Cell Line	embryonic stem cell
42	chr3:110891600-110892800	Strong transcription	Duodenum Smooth Muscle	Duodenum
43	chr3:110891600-110893400	Enhancers	iPS-20b Cell Line	embryonic stem cell
44	chr3:110891600-110894200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr3:110891600-110894400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr3:110891800-110892600	Genic enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr3:110891800-110892800	Enhancers	HUES6 Cell Line	embryonic stem cell
48	chr3:110891800-110892800	Enhancers	HUES64 Cell Line	embryonic stem cell
49	chr3:110891800-110893000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr3:110891800-110893200	Strong transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links