Variant report

Variant	rs236677
Chromosome Location	chr4:88000670-88000671
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:87997558..88001299-chr4:88002036..88005142,4	K562	blood:
2	chr4:87929301..87933851-chr4:88000404..88005339,4	K562	blood:
3	chr4:87926997..87929078-chr4:88000294..88003614,4	K562	blood:
4	chr4:87985304..87988283-chr4:88000597..88002319,2	K562	blood:
5	chr4:87926997..87929975-chr4:88000498..88004570,5	K562	blood:

Variant related genes	Relation type
ENSG00000172493	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10428496	1.00[AMR][1000 genomes]
rs11736924	1.00[AMR][1000 genomes]
rs236689	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2464615	1.00[AMR][1000 genomes]
rs2705615	1.00[AMR][1000 genomes]
rs404590	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009937	chr4:87795314-88008345	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
2	nsv999176	chr4:87869996-88098136	Strong transcription Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv998335	chr4:87869996-88104414	Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv1001017	chr4:87872160-88087003	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv537166	chr4:87872160-88087003	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv999098	chr4:87899091-88016048	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
7	nsv537167	chr4:87899091-88016048	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv997750	chr4:87933945-88264127	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	nsv879525	chr4:87964363-88033352	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87990200-88008000	Weak transcription	Spleen	Spleen
2	chr4:87995200-88000800	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr4:87995200-88009400	Weak transcription	HepG2	liver
4	chr4:87995200-88010600	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr4:87995200-88029200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr4:87995400-88006200	Weak transcription	Hela-S3	cervix
7	chr4:87995400-88037800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr4:87995600-88001000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr4:87995600-88001000	Weak transcription	Thymus	Thymus
10	chr4:87995600-88001200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr4:87995600-88001200	Weak transcription	Esophagus	oesophagus
12	chr4:87995600-88001400	Weak transcription	Fetal Intestine Small	intestine
13	chr4:87995600-88001600	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr4:87995600-88005200	Weak transcription	Primary monocytes fromperipheralblood	blood
15	chr4:87995600-88011200	Weak transcription	Colonic Mucosa	Colon
16	chr4:87995800-88003000	Weak transcription	Primary B cells from peripheral blood	blood
17	chr4:87995800-88005200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr4:87995800-88005200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr4:87995800-88023800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr4:87996000-88005400	Weak transcription	Primary T cells from cord blood	blood
21	chr4:87996000-88005400	Weak transcription	Monocytes-CD14+_RO01746	blood
22	chr4:87996000-88005800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr4:87996200-88005200	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr4:87996400-88005000	Weak transcription	Primary B cells from cord blood	blood
25	chr4:87996800-88004400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr4:87996800-88023600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr4:87997800-88002200	Enhancers	Fetal Heart	heart
28	chr4:87997800-88004400	Enhancers	Duodenum Smooth Muscle	Duodenum
29	chr4:87998000-88000800	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr4:87998200-88001200	Strong transcription	GM12878-XiMat	blood
31	chr4:87998600-88003600	Enhancers	NHDF-Ad	bronchial
32	chr4:87998800-88001200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr4:87998800-88001800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr4:87998800-88003200	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr4:87998800-88008000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr4:87999000-88000800	Flanking Active TSS	Brain Cingulate Gyrus	brain
37	chr4:87999000-88000800	Enhancers	Fetal Intestine Large	intestine
38	chr4:87999000-88001200	Enhancers	HMEC	breast
39	chr4:87999000-88002000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr4:87999000-88002000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr4:87999000-88005400	Enhancers	Adipose Nuclei	Adipose
42	chr4:87999200-88001000	Enhancers	Pancreatic Islets	Pancreatic Islet
43	chr4:87999200-88001400	Enhancers	HSMM	muscle
44	chr4:87999200-88002000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
45	chr4:87999400-88000800	Enhancers	Fetal Brain Male	brain
46	chr4:87999400-88001200	Enhancers	Fetal Stomach	stomach
47	chr4:87999400-88001600	Enhancers	Small Intestine	intestine
48	chr4:87999400-88002000	Enhancers	Placenta	Placenta
49	chr4:87999400-88002000	Enhancers	Ovary	ovary
50	chr4:87999400-88006000	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links