Variant report

Variant	rs6765500
Chromosome Location	chr3:100489476-100489477
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	WRNIP1	chr3:100489444-100489566	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
ABI3BP	TF binding region

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12696195	0.85[AMR][1000 genomes]
rs13089098	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13433770	0.94[CEU][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1992107	0.82[EUR][1000 genomes]
rs6808242	0.87[CEU][hapmap]
rs73861213	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs7642643	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9814084	0.93[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9823432	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9836360	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9846590	0.86[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs9873555	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9877253	0.93[CEU][hapmap]
rs9877951	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2751972	chr3:100342493-100493062	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv432469	chr3:100342493-100493062	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100450000-100501000	Weak transcription	Esophagus	oesophagus
2	chr3:100467400-100497600	Weak transcription	Fetal Intestine Small	intestine
3	chr3:100469800-100498200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:100469800-100501400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr3:100470200-100498400	Weak transcription	Right Ventricle	heart
6	chr3:100471000-100495800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr3:100471600-100500400	Weak transcription	Lung	lung
8	chr3:100471800-100494600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:100471800-100502000	Weak transcription	Brain Anterior Caudate	brain
10	chr3:100472800-100494400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:100473800-100496400	Weak transcription	Fetal Intestine Large	intestine
12	chr3:100474400-100494200	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr3:100474400-100500200	Weak transcription	HSMM	muscle
14	chr3:100474400-100501200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr3:100475000-100499000	Weak transcription	Placenta	Placenta
16	chr3:100475600-100520000	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr3:100478400-100496600	Weak transcription	Aorta	Aorta
18	chr3:100478800-100502000	Weak transcription	Psoas Muscle	Psoas
19	chr3:100479400-100493000	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr3:100480200-100493800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr3:100487400-100490000	Strong transcription	Osteobl	bone
22	chr3:100487600-100489800	Strong transcription	NHDF-Ad	bronchial
23	chr3:100487600-100490000	Strong transcription	Stomach Smooth Muscle	stomach
24	chr3:100487800-100489800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr3:100488000-100489600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr3:100488200-100490000	Enhancers	HUES64 Cell Line	embryonic stem cell
27	chr3:100488400-100490000	Strong transcription	Fetal Muscle Leg	muscle
28	chr3:100488600-100489800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
29	chr3:100488600-100489800	Strong transcription	Fetal Muscle Trunk	muscle
30	chr3:100488600-100489800	Strong transcription	Fetal Stomach	stomach
31	chr3:100488600-100489800	Strong transcription	Ovary	ovary
32	chr3:100488600-100490000	Strong transcription	Colon Smooth Muscle	Colon
33	chr3:100488600-100490000	Strong transcription	HSMMtube	muscle
34	chr3:100488600-100504600	Weak transcription	Adipose Nuclei	Adipose
35	chr3:100488800-100489600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr3:100488800-100489600	Strong transcription	Muscle Satellite Cultured Cells	--
37	chr3:100488800-100489800	Enhancers	H1 Cell Line	embryonic stem cell
38	chr3:100489000-100494400	Weak transcription	Fetal Lung	lung
39	chr3:100489400-100489600	Enhancers	Gastric	stomach
40	chr3:100489400-100489800	Strong transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links