Variant report

Variant	rs41370746
Chromosome Location	chr3:69924666-69924667
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:69912992..69915214-chr3:69922032..69924805,2	K562	blood:
2	chr3:69920584..69922723-chr3:69922850..69925611,2	K562	blood:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11920509	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11924822	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13314417	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13315220	1.00[EUR][1000 genomes]
rs13316652	1.00[ASW][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13321948	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13325667	0.82[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17006549	1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17006569	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17006572	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17006575	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28754428	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35773003	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41440046	1.00[ASW][hapmap];0.84[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs9818328	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9819125	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9824148	0.87[ASW][hapmap];1.00[TSI][hapmap]
rs9827219	1.00[ASW][hapmap];0.81[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9827735	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9832459	1.00[TSI][hapmap]
rs9833046	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9833501	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9836115	1.00[TSI][hapmap]
rs9837171	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9838445	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9842586	1.00[EUR][1000 genomes]
rs9843115	1.00[ASW][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9845314	1.00[EUR][1000 genomes]
rs9849776	1.00[EUR][1000 genomes]
rs9850565	1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9859340	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9874322	1.00[TSI][hapmap]
rs9874957	1.00[TSI][hapmap]
rs9880541	1.00[TSI][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	esv3507784	chr3:69802539-69959607	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv3507785	chr3:69802539-69959607	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69915800-69928400	Weak transcription	Pancreas	Pancrea
2	chr3:69916200-69924800	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:69916400-69933400	Weak transcription	Stomach Smooth Muscle	stomach
4	chr3:69916800-69931200	Weak transcription	Fetal Stomach	stomach
5	chr3:69917200-69951200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:69918600-69928200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:69920000-69932600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:69920400-69932800	Weak transcription	Adipose Nuclei	Adipose
9	chr3:69920800-69930200	Weak transcription	Fetal Kidney	kidney
10	chr3:69920800-69937600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr3:69920800-69950800	Weak transcription	Ovary	ovary
12	chr3:69921600-69926800	Weak transcription	Stomach Mucosa	stomach
13	chr3:69922200-69936400	Weak transcription	Colon Smooth Muscle	Colon
14	chr3:69922400-69926400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:69922400-69928400	Weak transcription	Aorta	Aorta
16	chr3:69922400-69939000	Weak transcription	NHLF	lung
17	chr3:69922600-69934200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr3:69923000-69924800	Weak transcription	A549	lung
19	chr3:69923000-69933400	Weak transcription	Hela-S3	cervix
20	chr3:69923000-69935000	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr3:69923000-69937800	Weak transcription	Rectal Smooth Muscle	rectum
22	chr3:69923200-69926600	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr3:69923400-69929200	Enhancers	Fetal Heart	heart
24	chr3:69924200-69924800	Enhancers	Right Ventricle	heart
25	chr3:69924400-69924800	Weak transcription	Brain Anterior Caudate	brain
26	chr3:69924400-69927600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr3:69924400-69927600	Weak transcription	Psoas Muscle	Psoas
28	chr3:69924400-69928200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr3:69924600-69925400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr3:69924600-69926000	Enhancers	Brain Germinal Matrix	brain
31	chr3:69924600-69927600	Weak transcription	Gastric	stomach
32	chr3:69924600-69928200	Weak transcription	Left Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links