Variant report

Variant	rs13400502
Chromosome Location	chr2:113935721-113935722
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:113914021..113918016-chr2:113931911..113937619,8	MCF-7	breast:
2	chr2:113935660..113937714-chr2:113950239..113952545,2	K562	blood:
3	chr2:113933965..113936589-chr2:113937925..113940404,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000125637	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12711763	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13382259	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13419549	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34461072	0.90[AFR][1000 genomes]
rs3738908	0.81[ASN][1000 genomes]
rs3762494	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs45550936	0.98[ASN][1000 genomes]
rs45560933	0.96[ASN][1000 genomes]
rs45603540	0.91[ASN][1000 genomes]
rs6542123	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv997348	chr2:113688093-113986508	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv582711	chr2:113895516-113984503	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv582712	chr2:113932431-113985170	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv874897	chr2:113935407-113944762	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv874898	chr2:113935407-113954247	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv874899	chr2:113935407-113962071	Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:113916000-113939000	Weak transcription	Right Atrium	heart
2	chr2:113923000-113951800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr2:113923000-113956000	Weak transcription	HMEC	breast
4	chr2:113923800-113937800	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr2:113927600-113936200	Weak transcription	NHEK	skin
6	chr2:113928000-113935800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr2:113930800-113937800	Weak transcription	Pancreas	Pancrea
8	chr2:113931400-113936200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr2:113931400-113937800	Weak transcription	Fetal Intestine Large	intestine
10	chr2:113932000-113937600	Weak transcription	Gastric	stomach
11	chr2:113932400-113937600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr2:113932400-113939400	Weak transcription	Fetal Stomach	stomach
13	chr2:113932400-113939600	Enhancers	Placenta	Placenta
14	chr2:113932800-113935800	Weak transcription	Stomach Mucosa	stomach
15	chr2:113932800-113937600	Weak transcription	Fetal Muscle Leg	muscle
16	chr2:113933000-113938000	Weak transcription	Brain Hippocampus Middle	brain
17	chr2:113933000-113938800	Weak transcription	Adipose Nuclei	Adipose
18	chr2:113933400-113937800	Weak transcription	Small Intestine	intestine
19	chr2:113933800-113936800	Weak transcription	Liver	Liver
20	chr2:113934000-113936800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr2:113934000-113937800	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr2:113934200-113936000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr2:113934200-113939000	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr2:113934200-113949000	Genic enhancers	Primary B cells from peripheral blood	blood
25	chr2:113934200-113956200	Weak transcription	Rectal Smooth Muscle	rectum
26	chr2:113934400-113937600	Genic enhancers	Monocytes-CD14+_RO01746	blood
27	chr2:113934400-113939600	Enhancers	Placenta Amnion	Placenta Amnion
28	chr2:113934400-113940000	Genic enhancers	Primary monocytes fromperipheralblood	blood
29	chr2:113934400-113948600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr2:113934600-113936600	Genic enhancers	Primary neutrophils fromperipheralblood	blood
31	chr2:113934600-113937600	Genic enhancers	Primary T cells fromperipheralblood	blood
32	chr2:113934600-113937800	Genic enhancers	Primary B cells from cord blood	blood
33	chr2:113934600-113939000	Weak transcription	Colonic Mucosa	Colon
34	chr2:113934600-113939000	Enhancers	Duodenum Mucosa	Duodenum
35	chr2:113934600-113940800	Genic enhancers	Fetal Thymus	thymus
36	chr2:113934600-113941000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
37	chr2:113934600-113946400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
38	chr2:113934800-113936000	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
39	chr2:113934800-113936200	Weak transcription	Esophagus	oesophagus
40	chr2:113934800-113936200	Weak transcription	Fetal Intestine Small	intestine
41	chr2:113934800-113936200	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr2:113934800-113936600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
43	chr2:113934800-113938600	Weak transcription	Fetal Lung	lung
44	chr2:113934800-113938800	Weak transcription	Lung	lung
45	chr2:113934800-113939000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
46	chr2:113934800-113939000	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
47	chr2:113934800-113939400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr2:113934800-113939800	Genic enhancers	Thymus	Thymus
49	chr2:113935000-113935800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr2:113935000-113936000	Transcr. at gene 5' and 3'	Primary T cells from cord blood	blood

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