Variant report

Variant	rs35875899
Chromosome Location	chr4:3045837-3045838
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10021325	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11929936	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12506200	0.87[ASN][1000 genomes]
rs13141939	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs13144633	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2471342	0.98[ASN][1000 genomes]
rs34020100	0.84[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs34053308	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34157939	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34342095	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34945363	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35342954	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61114397	0.84[ASN][1000 genomes]
rs61407336	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7694687	0.93[ASN][1000 genomes]
rs7696040	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3418626	chr4:2741174-3461492	Genic enhancers Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv3397632	chr4:2741239-3460583	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv461163	chr4:2906285-3234980	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
4	nsv593437	chr4:2906285-3234980	Genic enhancers Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
5	nsv1013440	chr4:2993130-3053503	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:3043200-3046000	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr4:3043600-3047400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr4:3044000-3046800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr4:3044000-3048600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr4:3044000-3049400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr4:3044200-3046400	Weak transcription	Primary hematopoietic stem cells	blood
7	chr4:3044200-3046800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr4:3044200-3047000	Weak transcription	Primary T cells from cord blood	blood
9	chr4:3044200-3047200	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr4:3044200-3049000	Enhancers	Primary T cells fromperipheralblood	blood
11	chr4:3044200-3049400	Weak transcription	Brain Hippocampus Middle	brain
12	chr4:3044200-3049400	Weak transcription	HUVEC	blood vessel
13	chr4:3044400-3046000	Weak transcription	Fetal Intestine Large	intestine
14	chr4:3044400-3046200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr4:3044400-3046400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr4:3044400-3046400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr4:3044400-3046400	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr4:3044400-3046400	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr4:3044400-3046600	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr4:3044400-3047000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr4:3044400-3047000	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr4:3044400-3047000	Weak transcription	NHDF-Ad	bronchial
23	chr4:3044400-3049200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
24	chr4:3044400-3049200	Weak transcription	Stomach Mucosa	stomach
25	chr4:3044400-3050800	Enhancers	Primary B cells from peripheral blood	blood
26	chr4:3044600-3046000	Weak transcription	Esophagus	oesophagus
27	chr4:3044600-3046200	Weak transcription	Duodenum Mucosa	Duodenum
28	chr4:3044600-3046400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr4:3044600-3046400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr4:3044600-3046400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr4:3044600-3046400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr4:3044600-3046400	Weak transcription	Fetal Intestine Small	intestine
33	chr4:3044600-3046400	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr4:3044600-3046600	Weak transcription	Primary neutrophils fromperipheralblood	blood
35	chr4:3044600-3046600	Weak transcription	Spleen	Spleen
36	chr4:3044600-3046800	Weak transcription	Osteobl	bone
37	chr4:3044600-3047000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr4:3044600-3047000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr4:3044600-3047000	Weak transcription	Adipose Nuclei	Adipose
40	chr4:3044600-3048000	Weak transcription	Right Atrium	heart
41	chr4:3044600-3049200	Weak transcription	Brain Anterior Caudate	brain
42	chr4:3044600-3049200	Weak transcription	Lung	lung
43	chr4:3044600-3049400	Weak transcription	Gastric	stomach
44	chr4:3044800-3046200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr4:3044800-3046400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr4:3044800-3046400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr4:3044800-3046600	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr4:3044800-3047200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr4:3044800-3050600	Enhancers	Primary B cells from cord blood	blood
50	chr4:3045000-3046000	Weak transcription	Primary T helper cells fromperipheralblood	blood

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