Variant report

Variant	rs9878661
Chromosome Location	chr3:139170578-139170579
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	chr3:139168645..139171256-chr3:139173067..139176313,3	K562	blood:
2	chr3:139165019..139166769-chr3:139169234..139171368,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs12695695	0.82[EUR][1000 genomes]
rs13325144	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9839834	0.82[EUR][1000 genomes]
rs9846449	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877543	chr3:139021139-139327261	Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv1003154	chr3:139060841-139788752	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
3	nsv536729	chr3:139060841-139788752	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	nsv949635	chr3:139091219-139367043	Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv1000519	chr3:139159300-139206245	Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv2752377	chr3:139163302-139188302	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 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	chr3:139142200-139172200	Weak transcription	Fetal Heart	heart
2	chr3:139142800-139176800	Weak transcription	Fetal Stomach	stomach
3	chr3:139144800-139173200	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr3:139149800-139170600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:139154200-139171200	Weak transcription	Right Atrium	heart
6	chr3:139154200-139173600	Weak transcription	Ovary	ovary
7	chr3:139154200-139178600	Weak transcription	Left Ventricle	heart
8	chr3:139158600-139172600	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr3:139158600-139174800	Weak transcription	Adipose Nuclei	Adipose
10	chr3:139160200-139174800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr3:139160600-139174800	Weak transcription	Fetal Brain Male	brain
12	chr3:139163400-139189000	Weak transcription	Small Intestine	intestine
13	chr3:139163800-139180200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr3:139165800-139178600	Weak transcription	Right Ventricle	heart
15	chr3:139166000-139179000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr3:139167000-139175400	Weak transcription	Fetal Brain Female	brain
17	chr3:139167400-139170600	Weak transcription	Fetal Muscle Trunk	muscle
18	chr3:139167400-139173200	Weak transcription	Fetal Muscle Leg	muscle
19	chr3:139167400-139174800	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr3:139167400-139176000	Weak transcription	Brain Anterior Caudate	brain
21	chr3:139167600-139173400	Weak transcription	Brain Germinal Matrix	brain
22	chr3:139168000-139175200	Weak transcription	Brain Angular Gyrus	brain
23	chr3:139168600-139196000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
24	chr3:139169200-139172200	Enhancers	HSMMtube	muscle
25	chr3:139169200-139175000	Genic enhancers	Fetal Intestine Small	intestine
26	chr3:139169400-139173400	Weak transcription	Pancreas	Pancrea
27	chr3:139169800-139170600	Enhancers	HUES6 Cell Line	embryonic stem cell
28	chr3:139170000-139170600	Strong transcription	Duodenum Mucosa	Duodenum
29	chr3:139170200-139170600	Enhancers	H1 Cell Line	embryonic stem cell
30	chr3:139170200-139170600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr3:139170200-139170600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr3:139170200-139170800	Enhancers	Brain Hippocampus Middle	brain
33	chr3:139170200-139170800	Enhancers	Brain Inferior Temporal Lobe	brain
34	chr3:139170200-139170800	Enhancers	Brain Substantia Nigra	brain
35	chr3:139170200-139171400	Enhancers	Brain Cingulate Gyrus	brain
36	chr3:139170200-139172000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr3:139170200-139173000	Genic enhancers	Fetal Intestine Large	intestine
38	chr3:139170400-139170600	Enhancers	HUES64 Cell Line	embryonic stem cell
39	chr3:139170400-139170800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
40	chr3:139170400-139171200	Strong transcription	Stomach Smooth Muscle	stomach

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