Variant report

Variant	rs3797373
Chromosome Location	chr5:75872448-75872449
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10056433	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs10056943	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10077289	1.00[JPT][hapmap]
rs10078127	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10079178	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1501787	1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.82[TSI][hapmap];0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs17652394	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs28571797	0.85[ASN][1000 genomes]
rs3797389	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3885957	1.00[CEU][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.94[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55689909	1.00[ASN][1000 genomes]
rs6888854	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7722452	1.00[ASN][1000 genomes]
rs9293689	0.86[ASN][1000 genomes]
rs9293690	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];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	nsv1022032	chr5:75785106-75914003	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS 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	3 gene(s)	inside rSNPs	diseases
2	nsv598679	chr5:75823965-75914729	Flanking Active TSS Weak transcription Genic enhancers Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1023953	chr5:75831037-75913784	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1026257	chr5:75831037-75914003	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1016823	chr5:75831037-75915905	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1019669	chr5:75836365-76477788	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	nsv598680	chr5:75839165-75914729	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS 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	2 gene(s)	inside rSNPs	diseases
8	nsv598681	chr5:75863987-75902533	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:75843800-75884400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr5:75845400-75876600	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr5:75846800-75902600	Weak transcription	Rectal Smooth Muscle	rectum
4	chr5:75851800-75892000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr5:75852800-75877800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr5:75852800-75877800	Weak transcription	Small Intestine	intestine
7	chr5:75853200-75896400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr5:75856400-75873000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr5:75858800-75876600	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr5:75859000-75873200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr5:75859000-75878600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr5:75861200-75889600	Weak transcription	Fetal Stomach	stomach
13	chr5:75861400-75878600	Weak transcription	Pancreas	Pancrea
14	chr5:75862200-75885400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr5:75862600-75873600	Weak transcription	HepG2	liver
16	chr5:75862600-75877800	Weak transcription	K562	blood
17	chr5:75862800-75880200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr5:75863400-75872800	Weak transcription	Gastric	stomach
19	chr5:75864600-75876200	Weak transcription	Stomach Mucosa	stomach
20	chr5:75864600-75876600	Weak transcription	Fetal Intestine Small	intestine
21	chr5:75864600-75878200	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr5:75864800-75878200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr5:75865400-75885800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr5:75866000-75873400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
25	chr5:75867200-75876600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr5:75867400-75873400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr5:75867800-75886000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr5:75868000-75872800	Weak transcription	Duodenum Mucosa	Duodenum
29	chr5:75868000-75875000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr5:75868000-75878200	Weak transcription	Primary B cells from cord blood	blood
31	chr5:75868000-75878600	Weak transcription	Placenta	Placenta
32	chr5:75868000-75884400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr5:75868000-75885200	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr5:75868000-75885400	Weak transcription	Primary T cells from cord blood	blood
35	chr5:75868400-75873600	Weak transcription	Primary B cells from peripheral blood	blood
36	chr5:75869200-75876800	Weak transcription	Primary hematopoietic stem cells	blood
37	chr5:75870000-75872600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr5:75870200-75872600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr5:75870200-75875400	Strong transcription	Monocytes-CD14+_RO01746	blood
40	chr5:75870400-75874200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr5:75870400-75875400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr5:75870600-75875200	Strong transcription	Primary monocytes fromperipheralblood	blood
43	chr5:75870600-75875200	Strong transcription	Primary T helper cells fromperipheralblood	blood
44	chr5:75871400-75876400	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr5:75871400-75876800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr5:75871400-75878800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr5:75872000-75872600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
48	chr5:75872200-75873600	Strong transcription	Primary T helper cells PMA-I stimulated	--
49	chr5:75872200-75874000	Enhancers	Fetal Lung	lung
50	chr5:75872200-75875000	Strong transcription	Liver	Liver

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