Variant report

Variant	rs3797234
Chromosome Location	chr5:53550994-53550995
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:53548793..53551112-chr5:53604189..53607457,3	K562	blood:
2	chr5:53550109..53551023-chr5:53717085..53718164,3	MCF-7	breast:
3	chr5:53543864..53552129-chr5:53602110..53608167,13	MCF-7	breast:
4	chr5:53548561..53553376-chr5:53604840..53608872,8	MCF-7	breast:
5	chr5:53548913..53551229-chr5:53657670..53659874,2	MCF-7	breast:
6	chr5:53549466..53553439-chr5:53553747..53557926,5	K562	blood:
7	chr5:53536985..53551112-chr5:53602807..53614557,36	K562	blood:
8	chr5:53550225..53552715-chr5:53615476..53618900,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000249069	Chromatin interaction
ENSG00000185305	Chromatin interaction

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10044346	0.92[ASN][1000 genomes]
rs10077344	0.94[ASN][1000 genomes]
rs10940367	0.92[ASN][1000 genomes]
rs10940368	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10940369	0.94[ASN][1000 genomes]
rs10940370	0.94[ASN][1000 genomes]
rs10940371	0.94[ASN][1000 genomes]
rs10940373	0.94[ASN][1000 genomes]
rs10940374	0.94[ASN][1000 genomes]
rs11743476	0.94[ASN][1000 genomes]
rs11745511	0.94[ASN][1000 genomes]
rs12153418	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12233919	0.92[ASN][1000 genomes]
rs12516888	0.88[ASN][1000 genomes]
rs13176320	0.93[ASN][1000 genomes]
rs13180005	0.94[ASN][1000 genomes]
rs13183117	0.94[ASN][1000 genomes]
rs1445828	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs166093	0.89[ASN][1000 genomes]
rs17619996	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2289853	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2289854	0.95[ASN][1000 genomes]
rs2289855	0.96[ASN][1000 genomes]
rs2289856	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2407405	0.92[ASN][1000 genomes]
rs250391	0.85[ASN][1000 genomes]
rs26885	0.89[ASN][1000 genomes]
rs26886	0.90[ASN][1000 genomes]
rs33282	0.88[ASN][1000 genomes]
rs35918	0.82[ASN][1000 genomes]
rs35921	0.89[ASN][1000 genomes]
rs35923	0.90[ASN][1000 genomes]
rs35952	0.80[ASN][1000 genomes]
rs3776641	0.92[ASN][1000 genomes]
rs3776642	0.92[ASN][1000 genomes]
rs3776644	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3776649	0.94[ASN][1000 genomes]
rs3776651	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3797228	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3797230	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3797231	0.95[ASN][1000 genomes]
rs3797232	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3797233	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3797235	0.98[ASN][1000 genomes]
rs3797236	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3797237	0.92[ASN][1000 genomes]
rs3797238	0.92[ASN][1000 genomes]
rs3857282	0.93[ASN][1000 genomes]
rs388337	0.88[ASN][1000 genomes]
rs3910951	0.92[ASN][1000 genomes]
rs4865810	0.92[ASN][1000 genomes]
rs4865812	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4865813	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56854461	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6450181	0.92[ASN][1000 genomes]
rs6450184	0.92[ASN][1000 genomes]
rs67332769	0.81[EUR][1000 genomes]
rs67553857	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6872062	0.90[ASN][1000 genomes]
rs6872430	0.92[ASN][1000 genomes]
rs6883819	0.94[ASN][1000 genomes]
rs6884123	0.93[ASN][1000 genomes]
rs72754232	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7704911	0.89[ASN][1000 genomes]
rs7725454	0.92[ASN][1000 genomes]
rs9292042	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032632	chr5:52667145-53655624	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv880713	chr5:53198059-53906103	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv881616	chr5:53305742-53639975	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
4	nsv881018	chr5:53305742-53744849	Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
5	nsv880734	chr5:53305742-53770217	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
6	nsv881161	chr5:53305742-53815495	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
7	nsv881600	chr5:53305742-53823285	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
8	nsv598176	chr5:53311502-53739530	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
9	nsv880773	chr5:53311918-53815495	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
10	nsv1024303	chr5:53317896-53788276	Flanking Bivalent TSS/Enh Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
11	nsv1029224	chr5:53317896-53812899	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
12	nsv949098	chr5:53317990-53816782	Active TSS Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	16 gene(s)	inside rSNPs	diseases
13	nsv1020517	chr5:53324930-53759046	Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
14	nsv1017768	chr5:53326385-53752165	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
15	nsv1032352	chr5:53327170-53762973	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
16	nsv598177	chr5:53333477-53755208	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
17	nsv881056	chr5:53368869-53744849	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
18	nsv881408	chr5:53386267-53815495	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
19	nsv1031072	chr5:53490130-53698866	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
20	nsv880304	chr5:53524508-53727092	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:53537400-53575200	Weak transcription	Primary hematopoietic stem cells	blood
2	chr5:53543200-53556600	Weak transcription	Fetal Lung	lung
3	chr5:53543600-53553800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr5:53545600-53551600	Enhancers	K562	blood
5	chr5:53545600-53553000	Weak transcription	HMEC	breast
6	chr5:53545800-53553200	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr5:53545800-53553800	Weak transcription	Lung	lung
8	chr5:53546000-53553800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr5:53546200-53553600	Weak transcription	GM12878-XiMat	blood
10	chr5:53546800-53553200	Weak transcription	Small Intestine	intestine
11	chr5:53548200-53551800	Weak transcription	Stomach Mucosa	stomach
12	chr5:53548400-53551800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr5:53548400-53555800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr5:53548600-53553200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr5:53548600-53553200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr5:53549400-53569800	Weak transcription	Fetal Intestine Small	intestine
17	chr5:53550200-53551000	Active TSS	Pancreatic Islets	Pancreatic Islet
18	chr5:53550400-53551000	Enhancers	Adipose Nuclei	Adipose
19	chr5:53550400-53551000	Active TSS	Left Ventricle	heart
20	chr5:53550400-53551000	Active TSS	Right Atrium	heart
21	chr5:53550400-53551000	Active TSS	Osteobl	bone
22	chr5:53550600-53551000	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr5:53550600-53551000	Active TSS	Liver	Liver
24	chr5:53550600-53551000	Enhancers	Brain Anterior Caudate	brain
25	chr5:53550600-53551000	Active TSS	Brain Hippocampus Middle	brain
26	chr5:53550600-53551000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
27	chr5:53550600-53551000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr5:53550600-53551000	Flanking Active TSS	Psoas Muscle	Psoas
29	chr5:53550600-53551000	Active TSS	Right Ventricle	heart
30	chr5:53550600-53551000	Active TSS	Skeletal Muscle Female	skeletal muscle
31	chr5:53550600-53551000	Active TSS	Stomach Smooth Muscle	stomach
32	chr5:53550600-53551200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr5:53550600-53551200	Enhancers	Fetal Heart	heart
34	chr5:53550800-53551000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr5:53550800-53551000	Flanking Active TSS	Aorta	Aorta
36	chr5:53550800-53551000	Enhancers	Fetal Kidney	kidney
37	chr5:53550800-53551000	Enhancers	Gastric	stomach
38	chr5:53550800-53551000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
39	chr5:53550800-53559400	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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