Variant report

Variant	rs17024201
Chromosome Location	chr4:148879583-148879584
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10021991	0.81[YRI][hapmap]
rs10519927	0.96[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10519934	0.85[MKK][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes]
rs17024031	1.00[AMR][1000 genomes]
rs17024193	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs17024236	0.91[ASW][hapmap];0.86[LWK][hapmap];0.90[MKK][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2635265	1.00[AMR][1000 genomes]
rs41515750	1.00[AMR][1000 genomes]
rs4393981	0.96[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55657699	1.00[AMR][1000 genomes]
rs55771362	1.00[AMR][1000 genomes]
rs55881523	0.89[AFR][1000 genomes]
rs56320153	0.88[AFR][1000 genomes]
rs56756471	1.00[AMR][1000 genomes]
rs57544959	1.00[AMR][1000 genomes]
rs58028291	1.00[AMR][1000 genomes]
rs60201372	0.93[AFR][1000 genomes]
rs60280395	1.00[AMR][1000 genomes]
rs60361452	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60770463	1.00[AMR][1000 genomes]
rs61300612	1.00[AMR][1000 genomes]
rs73853987	1.00[AMR][1000 genomes]
rs73853992	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73853995	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498083	chr4:148519825-148917583	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers 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	20 gene(s)	inside rSNPs	diseases
2	nsv880243	chr4:148735644-148879583	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv880244	chr4:148764252-148920089	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1029845	chr4:148766290-148916437	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1030001	chr4:148773479-148916437	Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1017904	chr4:148814133-148975348	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1024596	chr4:148830472-148886915	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:148797400-148879600	Weak transcription	Gastric	stomach
2	chr4:148826600-148888200	Weak transcription	Fetal Thymus	thymus
3	chr4:148850200-148890800	Weak transcription	HUVEC	blood vessel
4	chr4:148855400-148884800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr4:148856400-148889000	Weak transcription	Placenta	Placenta
6	chr4:148859400-148898000	Weak transcription	Duodenum Mucosa	Duodenum
7	chr4:148861800-148883000	Weak transcription	Lung	lung
8	chr4:148861800-148883000	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr4:148861800-148884800	Weak transcription	Esophagus	oesophagus
10	chr4:148861800-148885400	Weak transcription	Pancreas	Pancrea
11	chr4:148861800-148890800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr4:148862800-148887800	Weak transcription	Fetal Intestine Large	intestine
13	chr4:148864200-148887200	Weak transcription	NHLF	lung
14	chr4:148864400-148896800	Weak transcription	Osteobl	bone
15	chr4:148864800-148891200	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr4:148866400-148887400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr4:148866400-148889800	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr4:148866400-148927400	Weak transcription	Thymus	Thymus
19	chr4:148866600-148882800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr4:148867200-148891200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr4:148867400-148882000	Weak transcription	HSMMtube	muscle
22	chr4:148868200-148902600	Weak transcription	NH-A	brain
23	chr4:148869200-148883000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr4:148869200-148883000	Weak transcription	GM12878-XiMat	blood
25	chr4:148869400-148883200	Weak transcription	Right Ventricle	heart
26	chr4:148870000-148884800	Weak transcription	Fetal Intestine Small	intestine
27	chr4:148872200-148879600	Weak transcription	Fetal Stomach	stomach
28	chr4:148872200-148883000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr4:148872400-148884400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr4:148873400-148884800	Weak transcription	Fetal Muscle Trunk	muscle
31	chr4:148873600-148884800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr4:148873600-148885400	Weak transcription	Fetal Kidney	kidney
33	chr4:148874000-148885400	Weak transcription	Fetal Lung	lung
34	chr4:148876200-148880000	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr4:148876400-148879600	Enhancers	HUES48 Cell Line	embryonic stem cell
36	chr4:148876400-148879800	Enhancers	HUES64 Cell Line	embryonic stem cell
37	chr4:148877000-148880200	Enhancers	Colon Smooth Muscle	Colon
38	chr4:148877400-148879600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr4:148877600-148879800	Weak transcription	Rectal Smooth Muscle	rectum
40	chr4:148877600-148884800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr4:148877600-148889600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr4:148877800-148883000	Weak transcription	Adipose Nuclei	Adipose
43	chr4:148877800-148884600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr4:148878000-148879800	Enhancers	H9 Cell Line	embryonic stem cell
45	chr4:148878000-148880000	Enhancers	H1 Cell Line	embryonic stem cell
46	chr4:148878000-148880000	Enhancers	iPS-15b Cell Line	embryonic stem cell
47	chr4:148878000-148890600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr4:148878200-148879600	Genic enhancers	Left Ventricle	heart
49	chr4:148878200-148879800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr4:148878200-148879800	Enhancers	Placenta Amnion	Placenta Amnion

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