Variant report

Variant	rs56372008
Chromosome Location	chr3:51316909-51316910
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs11716837	1.00[AFR][1000 genomes]
rs73076495	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73078617	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005858	chr3:51090373-51444027	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv536569	chr3:51090373-51444027	Flanking Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51288200-51319200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:51296400-51318800	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr3:51297000-51317400	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr3:51298000-51320800	Weak transcription	Stomach Smooth Muscle	stomach
5	chr3:51298400-51319000	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr3:51299600-51320800	Weak transcription	Brain Germinal Matrix	brain
7	chr3:51304400-51317400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:51305000-51318800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:51308200-51323000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr3:51311200-51319200	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr3:51312200-51319000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:51312200-51319200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr3:51313000-51322800	Weak transcription	HSMMtube	muscle
14	chr3:51313000-51323800	Weak transcription	Fetal Brain Male	brain
15	chr3:51313200-51317000	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr3:51313200-51317400	Weak transcription	Brain Angular Gyrus	brain
17	chr3:51313400-51321800	Weak transcription	Right Ventricle	heart
18	chr3:51313400-51322800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr3:51313800-51317400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr3:51314200-51317400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr3:51315400-51317200	Weak transcription	Brain Cingulate Gyrus	brain
22	chr3:51315400-51350000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr3:51315600-51319000	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr3:51316000-51317200	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr3:51316000-51320600	Weak transcription	Fetal Brain Female	brain
26	chr3:51316600-51317600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr3:51316600-51318600	Enhancers	Brain Substantia Nigra	brain
28	chr3:51316800-51317400	Enhancers	Liver	Liver
29	chr3:51316800-51318000	Enhancers	Brain Anterior Caudate	brain
30	chr3:51316800-51318200	Enhancers	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links