Variant report

Variant	rs13422660
Chromosome Location	chr2:37116603-37116604
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:37116050..37118229-chr2:37119836..37122372,2	K562	blood:
2	chr2:37112252..37114608-chr2:37115570..37119781,3	MCF-7	breast:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10166375	1.00[ASN][1000 genomes]
rs10171853	0.85[AFR][1000 genomes]
rs10174832	1.00[CEU][hapmap]
rs10177905	1.00[CEU][hapmap]
rs10187519	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10187755	1.00[ASN][1000 genomes]
rs10201668	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10209892	1.00[ASN][1000 genomes]
rs10210881	1.00[ASN][1000 genomes]
rs13385893	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13397869	1.00[ASN][1000 genomes]
rs13398577	1.00[CEU][hapmap]
rs13408934	1.00[ASN][1000 genomes]
rs13430716	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs2372811	1.00[ASN][1000 genomes]
rs2540923	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs2691111	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs28386843	1.00[ASN][1000 genomes]
rs28593131	1.00[ASN][1000 genomes]
rs28701005	1.00[ASN][1000 genomes]
rs6716696	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs7571203	1.00[ASN][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	nsv1004483	chr2:36875235-37356812	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv535644	chr2:36875235-37356812	Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv428395	chr2:36990348-37300352	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv456363	chr2:37109281-37235324	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
5	nsv581470	chr2:37109281-37235324	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:37067600-37146200	Weak transcription	Psoas Muscle	Psoas
2	chr2:37075600-37139200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr2:37077200-37144400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr2:37077400-37136600	Weak transcription	Colon Smooth Muscle	Colon
5	chr2:37078200-37118400	Weak transcription	Fetal Brain Male	brain
6	chr2:37087400-37146200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr2:37094400-37154200	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr2:37096400-37117000	Weak transcription	K562	blood
9	chr2:37096400-37143800	Weak transcription	Fetal Kidney	kidney
10	chr2:37096800-37154400	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr2:37099000-37116800	Weak transcription	A549	lung
12	chr2:37099200-37140200	Weak transcription	Colonic Mucosa	Colon
13	chr2:37100400-37116800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr2:37101800-37119200	Weak transcription	GM12878-XiMat	blood
15	chr2:37103800-37117200	Weak transcription	HSMMtube	muscle
16	chr2:37103800-37121400	Weak transcription	Small Intestine	intestine
17	chr2:37103800-37146200	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr2:37104200-37117800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr2:37105000-37152600	Weak transcription	Rectal Smooth Muscle	rectum
20	chr2:37105000-37164600	Weak transcription	Lung	lung
21	chr2:37105200-37117000	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr2:37105200-37117200	Weak transcription	HMEC	breast
23	chr2:37105200-37118400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr2:37105200-37125400	Weak transcription	Brain Hippocampus Middle	brain
25	chr2:37105200-37136200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr2:37105200-37139200	Weak transcription	Aorta	Aorta
27	chr2:37105200-37141200	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr2:37105200-37144000	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr2:37105200-37154400	Weak transcription	Esophagus	oesophagus
30	chr2:37105200-37157800	Weak transcription	Pancreas	Pancrea
31	chr2:37105200-37164600	Weak transcription	Spleen	Spleen
32	chr2:37105800-37116800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr2:37105800-37146400	Weak transcription	Right Ventricle	heart
34	chr2:37109000-37117600	Strong transcription	Primary B cells from cord blood	blood
35	chr2:37110000-37135800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr2:37110200-37120600	Weak transcription	HepG2	liver
37	chr2:37110800-37119400	Weak transcription	Fetal Stomach	stomach
38	chr2:37110800-37142800	Weak transcription	Gastric	stomach
39	chr2:37111000-37120200	Weak transcription	Fetal Lung	lung
40	chr2:37111200-37117000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr2:37111200-37117000	Weak transcription	Fetal Muscle Leg	muscle
42	chr2:37111200-37117000	Weak transcription	Thymus	Thymus
43	chr2:37111200-37117200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr2:37111200-37118200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
45	chr2:37111200-37119200	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr2:37111200-37120800	Weak transcription	Liver	Liver
47	chr2:37111200-37122400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
48	chr2:37111200-37140600	Weak transcription	Fetal Brain Female	brain
49	chr2:37111400-37119600	Strong transcription	Primary hematopoietic stem cells	blood
50	chr2:37111600-37117000	Weak transcription	Brain Anterior Caudate	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links