Variant report

Variant	rs115141716
Chromosome Location	chr3:46716966-46716967
allele	C/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	FOXA2	chr3:46716858-46717053	HepG2	liver:	n/a	n/a
2	ZNF263	chr3:46716079-46717023	K562	blood:	n/a	n/a

Variant related genes	Relation type
ALS2CL	TF binding region

Extended variants
information (count: 18 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007449	chr3:46652343-46986578	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv536554	chr3:46652343-46986578	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	nsv876739	chr3:46656980-46744966	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv876740	chr3:46656980-46748453	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv876741	chr3:46663372-46763839	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	nsv516623	chr3:46680063-46852679	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
7	esv2757869	chr3:46680452-46972489	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
8	esv2759147	chr3:46680452-46972489	Genic enhancers Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
9	esv1804680	chr3:46704348-46869911	Bivalent Enhancer Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
10	nsv876742	chr3:46705369-46763839	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
11	nsv536555	chr3:46706571-46817963	Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
12	nsv536556	chr3:46706571-46849443	Genic enhancers Bivalent/Poised TSS Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
13	nsv536557	chr3:46706571-46853434	Bivalent Enhancer Flanking Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
14	nsv536558	chr3:46706571-47024756	Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
15	nsv10268	chr3:46707169-46736718	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases
16	esv1797503	chr3:46708712-46760713	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
17	nsv876743	chr3:46716523-46753577	Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases
18	nsv876744	chr3:46716523-46763839	Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46702800-46732400	Weak transcription	Psoas Muscle	Psoas
2	chr3:46703000-46731600	Weak transcription	Hela-S3	cervix
3	chr3:46705400-46732600	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr3:46705400-46734400	Weak transcription	Ovary	ovary
5	chr3:46705800-46717000	Weak transcription	Brain Anterior Caudate	brain
6	chr3:46706000-46717400	Weak transcription	Brain Angular Gyrus	brain
7	chr3:46707200-46717000	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:46708000-46717200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr3:46710000-46722000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr3:46710200-46722800	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr3:46711400-46718400	Weak transcription	Right Atrium	heart
12	chr3:46711400-46726800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr3:46711400-46730400	Strong transcription	Primary T cells from cord blood	blood
14	chr3:46711400-46731800	Strong transcription	NHEK	skin
15	chr3:46711600-46717200	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr3:46711600-46731000	Strong transcription	Esophagus	oesophagus
17	chr3:46711800-46717400	Strong transcription	Placenta	Placenta
18	chr3:46711800-46731200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr3:46712000-46717600	Strong transcription	Spleen	Spleen
20	chr3:46712000-46720400	Strong transcription	Lung	lung
21	chr3:46712200-46717200	Strong transcription	Skeletal Muscle Female	skeletal muscle
22	chr3:46712400-46717200	Strong transcription	Rectal Mucosa Donor 29	rectum
23	chr3:46712400-46718600	Strong transcription	Sigmoid Colon	Sigmoid Colon
24	chr3:46712400-46730600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr3:46712600-46717400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr3:46712600-46718200	Strong transcription	Left Ventricle	heart
27	chr3:46713000-46717400	Strong transcription	Right Ventricle	heart
28	chr3:46713000-46732000	Weak transcription	Stomach Mucosa	stomach
29	chr3:46713400-46718200	Strong transcription	Colonic Mucosa	Colon
30	chr3:46714800-46718000	Strong transcription	Adipose Nuclei	Adipose
31	chr3:46714800-46718000	Strong transcription	Aorta	Aorta
32	chr3:46714800-46729600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr3:46714800-46730400	Strong transcription	HMEC	breast
34	chr3:46715000-46717200	Strong transcription	Pancreas	Pancrea
35	chr3:46715200-46718800	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr3:46715200-46723800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr3:46715400-46717600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr3:46715400-46731600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr3:46715600-46718400	Strong transcription	Fetal Stomach	stomach
40	chr3:46715600-46720200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr3:46715600-46721800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:46715800-46717200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr3:46715800-46717400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr3:46715800-46717400	Weak transcription	Gastric	stomach
45	chr3:46715800-46724000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr3:46716000-46717600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr3:46716000-46732000	Strong transcription	Fetal Intestine Small	intestine
48	chr3:46716200-46717400	Weak transcription	Duodenum Mucosa	Duodenum
49	chr3:46716200-46717600	Strong transcription	Fetal Intestine Large	intestine
50	chr3:46716200-46717800	Genic enhancers	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links