Variant report

Variant	rs13325325
Chromosome Location	chr3:52803589-52803590
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:52442610..52445343-chr3:52803282..52805357,2	K562	blood:
2	chr3:52803280..52805303-chr3:52832255..52833885,2	MCF-7	breast:
3	chr3:52802780..52807602-chr3:52827391..52831755,5	K562	blood:
4	chr3:52722798..52726345-chr3:52803116..52806448,3	K562	blood:

Variant related genes	Relation type
ENSG00000238862	Chromatin interaction
ENSG00000163938	Chromatin interaction
ENSG00000162267	Chromatin interaction
ENSG00000212493	Chromatin interaction
ENSG00000010318	Chromatin interaction
ENSG00000252787	Chromatin interaction
ENSG00000163930	Chromatin interaction
ENSG00000222345	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs35394357	0.90[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6790314	1.00[MEX][hapmap]
rs9814016	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9814833	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9834919	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9836894	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9864989	1.00[EUR][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	nsv984563	chr3:52516115-52867075	Weak transcription Strong transcription Enhancers Active TSS 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 target site	63 gene(s)	inside rSNPs	diseases
2	nsv508219	chr3:52741193-52803899	Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv834698	chr3:52749983-52928219	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases
4	esv2762328	chr3:52774884-53002150	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	esv3446915	chr3:52786850-53049217	Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52741600-52804000	Weak transcription	Psoas Muscle	Psoas
2	chr3:52768000-52803600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:52783200-52803800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:52784800-52804000	Weak transcription	Aorta	Aorta
5	chr3:52786200-52803600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr3:52786400-52803600	Weak transcription	Stomach Mucosa	stomach
7	chr3:52786400-52803800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:52787600-52803600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:52787600-52803600	Weak transcription	Colonic Mucosa	Colon
10	chr3:52787800-52803600	Weak transcription	Gastric	stomach
11	chr3:52787800-52804000	Weak transcription	Right Ventricle	heart
12	chr3:52788200-52803600	Weak transcription	Esophagus	oesophagus
13	chr3:52791400-52804000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr3:52794200-52803600	Weak transcription	Ovary	ovary
15	chr3:52794200-52803600	Weak transcription	Thymus	Thymus
16	chr3:52794200-52803800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr3:52798000-52803600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr3:52798000-52804000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr3:52800200-52803600	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr3:52800400-52803600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr3:52800400-52803600	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr3:52800400-52803600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr3:52800400-52803600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr3:52800400-52803600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr3:52800400-52803600	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr3:52800400-52803600	Weak transcription	Brain Cingulate Gyrus	brain
27	chr3:52800400-52803600	Weak transcription	Brain Substantia Nigra	brain
28	chr3:52800400-52803600	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr3:52800400-52803600	Weak transcription	Rectal Smooth Muscle	rectum
30	chr3:52800400-52803600	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr3:52800400-52803600	Weak transcription	Small Intestine	intestine
32	chr3:52800400-52803600	Weak transcription	A549	lung
33	chr3:52800400-52803600	Weak transcription	GM12878-XiMat	blood
34	chr3:52800400-52803600	Weak transcription	HSMMtube	muscle
35	chr3:52800400-52803600	Weak transcription	HUVEC	blood vessel
36	chr3:52800400-52803800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr3:52800400-52803800	Weak transcription	Primary B cells from cord blood	blood
38	chr3:52800400-52803800	Weak transcription	NH-A	brain
39	chr3:52800600-52803600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr3:52800600-52803600	Weak transcription	Primary B cells from peripheral blood	blood
41	chr3:52800600-52803600	Weak transcription	Primary hematopoietic stem cells	blood
42	chr3:52800600-52803600	Weak transcription	Placenta Amnion	Placenta Amnion
43	chr3:52800600-52803600	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr3:52800600-52803800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr3:52800800-52803600	Weak transcription	Osteobl	bone
46	chr3:52801400-52803800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr3:52801600-52803600	Weak transcription	Fetal Stomach	stomach
48	chr3:52802400-52803800	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr3:52802400-52803800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr3:52802600-52803600	Weak transcription	H1 Cell Line	embryonic stem cell

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