Variant report

Variant	rs16831125
Chromosome Location	chr2:153295834-153295835
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:153290893..153293486-chr2:153295142..153297714,3	K562	blood:
2	chr2:153276918..153279162-chr2:153293453..153296119,2	MCF-7	breast:
3	chr2:153290893..153293796-chr2:153295142..153299190,4	K562	blood:
4	chr2:153292111..153294538-chr2:153295389..153297275,2	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12468231	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16831066	0.83[JPT][hapmap]
rs34968716	0.81[ASN][1000 genomes]
rs3811575	0.82[JPT][hapmap]
rs4371310	0.82[JPT][hapmap]
rs4664104	1.00[CEU][hapmap]
rs4664574	1.00[CEU][hapmap]
rs4664583	0.94[JPT][hapmap]
rs4664585	0.86[CHB][hapmap];0.95[ASN][1000 genomes]
rs61549674	0.81[ASN][1000 genomes]
rs6434028	0.82[JPT][hapmap]
rs72621656	0.83[AMR][1000 genomes]
rs7602975	1.00[CEU][hapmap]
rs7606397	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834419	chr2:153179420-153381476	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	esv3693436	chr2:153219836-153479857	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv875291	chr2:153251742-153339823	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1013777	chr2:153273637-153538546	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:153280000-153305200	Enhancers	Brain Cingulate Gyrus	brain
2	chr2:153282600-153304400	Enhancers	Brain Anterior Caudate	brain
3	chr2:153286200-153301000	Enhancers	Brain Hippocampus Middle	brain
4	chr2:153286400-153305200	Enhancers	Brain Substantia Nigra	brain
5	chr2:153289200-153296800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr2:153289200-153301800	Weak transcription	NH-A	brain
7	chr2:153289600-153296600	Weak transcription	Small Intestine	intestine
8	chr2:153289600-153301400	Weak transcription	Fetal Thymus	thymus
9	chr2:153290200-153300400	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr2:153290400-153296000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr2:153290800-153296200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr2:153291200-153296600	Weak transcription	Adipose Nuclei	Adipose
13	chr2:153291200-153300600	Weak transcription	Colon Smooth Muscle	Colon
14	chr2:153291600-153296200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr2:153291600-153296600	Weak transcription	Placenta	Placenta
16	chr2:153291600-153300000	Weak transcription	Right Atrium	heart
17	chr2:153291600-153305200	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr2:153291800-153300000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr2:153292800-153297200	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr2:153292800-153298000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
21	chr2:153293000-153297400	Enhancers	iPS-20b Cell Line	embryonic stem cell
22	chr2:153293200-153296400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr2:153293200-153297400	Enhancers	HUES64 Cell Line	embryonic stem cell
24	chr2:153293400-153297000	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr2:153293600-153296000	Enhancers	Fetal Brain Male	brain
26	chr2:153293600-153297200	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr2:153293600-153302400	Enhancers	Brain Inferior Temporal Lobe	brain
28	chr2:153293800-153297000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr2:153294000-153297000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr2:153294200-153297000	Enhancers	iPS-15b Cell Line	embryonic stem cell
31	chr2:153294200-153298400	Weak transcription	GM12878-XiMat	blood
32	chr2:153294600-153297000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr2:153294600-153297000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr2:153294600-153297600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr2:153294600-153300600	Weak transcription	Rectal Smooth Muscle	rectum
36	chr2:153294800-153296600	Enhancers	NHEK	skin
37	chr2:153294800-153297200	Enhancers	HUES6 Cell Line	embryonic stem cell
38	chr2:153294800-153298000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
39	chr2:153295000-153302200	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr2:153295200-153296200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr2:153295200-153296600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr2:153295200-153300800	Weak transcription	HepG2	liver
43	chr2:153295400-153296200	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr2:153295400-153299400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr2:153295400-153299600	Weak transcription	Psoas Muscle	Psoas
46	chr2:153295400-153299800	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr2:153295400-153300000	Weak transcription	Fetal Muscle Leg	muscle
48	chr2:153295400-153300200	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr2:153295400-153300800	Weak transcription	Fetal Brain Female	brain
50	chr2:153295400-153302000	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links