Variant report

Variant	rs58222850
Chromosome Location	chr2:234270510-234270511
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:234268370..234271301-chr2:234272782..234274446,2	K562	blood:
2	chr2:234266865..234268565-chr2:234269887..234272310,2	K562	blood:
3	chr2:234268370..234271611-chr2:234272538..234274981,4	K562	blood:
4	chr2:234261499..234266840-chr2:234267799..234272402,9	K562	blood:

Variant related genes	Relation type
ENSG00000259793	Chromatin interaction
ENSG00000243637	Chromatin interaction
ENSG00000077044	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10168794	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10185174	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13384932	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13420976	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13427703	0.84[ASN][1000 genomes]
rs28437319	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28605452	0.84[ASN][1000 genomes]
rs28657808	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3762586	0.84[ASN][1000 genomes]
rs3792095	0.84[ASN][1000 genomes]
rs56871749	1.00[ASN][1000 genomes]
rs57712949	1.00[ASN][1000 genomes]
rs6745134	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73106630	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv584700	chr2:234199401-234364426	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv1002075	chr2:234225979-234277508	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv529419	chr2:234229606-234670426	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
4	nsv460135	chr2:234242347-234288048	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv584701	chr2:234242347-234288048	ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv460136	chr2:234244395-234288048	Weak transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv584702	chr2:234244395-234288048	Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	esv1820563	chr2:234263212-234282210	Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:234264400-234274800	Weak transcription	NHDF-Ad	bronchial
2	chr2:234264400-234287200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr2:234264600-234272400	Weak transcription	HUVEC	blood vessel
4	chr2:234264600-234290800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr2:234264600-234307600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr2:234264800-234271400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:234264800-234272200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr2:234264800-234289200	Weak transcription	Esophagus	oesophagus
9	chr2:234264800-234292800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr2:234265000-234272200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr2:234265000-234283800	Weak transcription	Thymus	Thymus
12	chr2:234265000-234295000	Weak transcription	Osteobl	bone
13	chr2:234265200-234284000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr2:234265200-234295000	Weak transcription	NH-A	brain
15	chr2:234265400-234281600	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr2:234265800-234272200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr2:234265800-234272200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr2:234265800-234272200	Weak transcription	Fetal Lung	lung
19	chr2:234265800-234272400	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr2:234265800-234272400	Weak transcription	Stomach Smooth Muscle	stomach
21	chr2:234265800-234278200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr2:234265800-234278200	Weak transcription	Brain Germinal Matrix	brain
23	chr2:234265800-234283800	Weak transcription	Colonic Mucosa	Colon
24	chr2:234265800-234289400	Weak transcription	Hela-S3	cervix
25	chr2:234265800-234293000	Weak transcription	HMEC	breast
26	chr2:234266000-234272200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr2:234266000-234272200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr2:234266000-234272200	Weak transcription	Liver	Liver
29	chr2:234266000-234272200	Weak transcription	HSMM	muscle
30	chr2:234266000-234272400	Weak transcription	Brain Anterior Caudate	brain
31	chr2:234266000-234272400	Weak transcription	HSMMtube	muscle
32	chr2:234266000-234274800	Weak transcription	Duodenum Mucosa	Duodenum
33	chr2:234266000-234274800	Weak transcription	Pancreas	Pancrea
34	chr2:234266000-234292400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr2:234266000-234292600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr2:234266000-234293000	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr2:234266400-234294000	Weak transcription	Fetal Brain Male	brain
38	chr2:234266600-234274800	Weak transcription	Lung	lung
39	chr2:234266600-234275000	Weak transcription	Gastric	stomach
40	chr2:234266600-234277600	Weak transcription	Spleen	Spleen
41	chr2:234266600-234281600	Weak transcription	Fetal Thymus	thymus
42	chr2:234266800-234271000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr2:234267000-234271400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr2:234267400-234271400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr2:234267400-234272200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
46	chr2:234267600-234272200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
47	chr2:234267600-234281600	Weak transcription	Dnd41	blood
48	chr2:234267800-234278400	Weak transcription	Rectal Smooth Muscle	rectum
49	chr2:234267800-234281600	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr2:234268000-234271800	Genic enhancers	Primary B cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links