Variant report

Variant	rs143787311
Chromosome Location	chr3:50540611-50540612
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:56756686..56757296-chr3:50540540..50541141,2	HCT-116	colon:

Variant related genes	Relation type
ENSG00000200997	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv523662	chr3:50144951-50584999	Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
2	esv1821728	chr3:50156142-50657253	Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	109 gene(s)	inside rSNPs	diseases
3	nsv470561	chr3:50158774-50584999	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	99 gene(s)	inside rSNPs	diseases
4	nsv876770	chr3:50158774-50609624	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
5	nsv1001993	chr3:50187646-50640808	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
6	esv3584502	chr3:50368278-50659741	Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
7	nsv432419	chr3:50388396-50637496	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
8	nsv1013225	chr3:50440826-50700448	Flanking Active TSS Enhancers Genic enhancers Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
9	nsv536566	chr3:50440826-50700448	Genic enhancers Weak transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
10	nsv984540	chr3:50473691-50669310	Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
11	nsv1012501	chr3:50483037-50679591	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
12	nsv536567	chr3:50483037-50679591	Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
13	nsv460532	chr3:50536273-50616049	Bivalent Enhancer Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	17 gene(s)	inside rSNPs	diseases
14	nsv590272	chr3:50536273-50616049	Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	17 gene(s)	inside rSNPs	diseases
15	esv3375288	chr3:50539473-50542821	Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:50539000-50541400	Active TSS	Pancreatic Islets	Pancreatic Islet
2	chr3:50539200-50540800	Bivalent Enhancer	Fetal Brain Male	brain
3	chr3:50539400-50541200	Active TSS	Brain Angular Gyrus	brain
4	chr3:50539600-50541600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
5	chr3:50539800-50540800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
6	chr3:50539800-50541400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
7	chr3:50539800-50541400	Active TSS	Right Atrium	heart
8	chr3:50540000-50540800	Flanking Bivalent TSS/Enh	Colonic Mucosa	Colon
9	chr3:50540000-50541000	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr3:50540000-50541600	Bivalent/Poised TSS	Primary T regulatory cells fromperipheralblood	blood
11	chr3:50540200-50540800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:50540200-50540800	Flanking Active TSS	Primary hematopoietic stem cells	blood
13	chr3:50540200-50540800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr3:50540200-50540800	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:50540200-50540800	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr3:50540200-50540800	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
17	chr3:50540200-50540800	Flanking Bivalent TSS/Enh	HMEC	breast
18	chr3:50540200-50540800	Bivalent Enhancer	HUVEC	blood vessel
19	chr3:50540200-50541000	Bivalent/Poised TSS	HepG2	liver
20	chr3:50540200-50541200	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr3:50540200-50541200	Bivalent/Poised TSS	HSMM	muscle
22	chr3:50540200-50541400	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
23	chr3:50540200-50541400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr3:50540200-50541400	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:50540200-50541400	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
26	chr3:50540200-50541400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
27	chr3:50540200-50541400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
28	chr3:50540200-50541400	Active TSS	Primary T helper naive cells from peripheral blood	blood
29	chr3:50540200-50541400	Active TSS	Aorta	Aorta
30	chr3:50540200-50541400	Bivalent/Poised TSS	A549	lung
31	chr3:50540200-50541600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
32	chr3:50540200-50541600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr3:50540200-50541800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
34	chr3:50540400-50540800	Flanking Bivalent TSS/Enh	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr3:50540400-50540800	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr3:50540400-50540800	Flanking Active TSS	Primary B cells from cord blood	blood
37	chr3:50540400-50540800	Active TSS	Primary T cells from cord blood	blood
38	chr3:50540400-50540800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
39	chr3:50540400-50540800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr3:50540400-50540800	Bivalent/Poised TSS	Fetal Intestine Small	intestine
41	chr3:50540400-50540800	Active TSS	Rectal Mucosa Donor 31	rectum
42	chr3:50540400-50541200	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
43	chr3:50540400-50541200	Active TSS	Primary T helper cells PMA-I stimulated	--
44	chr3:50540400-50541200	Active TSS	Duodenum Mucosa	Duodenum
45	chr3:50540400-50541200	Active TSS	Fetal Muscle Leg	muscle
46	chr3:50540400-50541200	Active TSS	Gastric	stomach
47	chr3:50540400-50541200	Active TSS	Skeletal Muscle Female	skeletal muscle
48	chr3:50540400-50541400	Active TSS	Primary T helper naive cells fromperipheralblood	blood
49	chr3:50540400-50541400	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
50	chr3:50540400-50541400	Active TSS	Primary T killer naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links