Variant report

Variant	rs1881944
Chromosome Location	chr3:112866920-112866921
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:112865633..112868819-chr3:112877200..112880555,3	MCF-7	breast:
2	chr3:112866581..112868430-chr3:112875306..112877224,2	K562	blood:

Variant related genes	Relation type
ENSG00000240057	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10934220	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11705763	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.96[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11708485	1.00[JPT][hapmap]
rs11710826	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11713978	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11716287	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1350786	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16860542	1.00[CEU][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17317973	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17318371	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56874575	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73223909	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73223910	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73223912	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73223913	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73223917	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7648917	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers 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 miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv829677	chr3:112857075-113038987	Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv1003511	chr3:112858775-112989045	Weak transcription Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112858600-112867400	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr3:112863400-112870600	Weak transcription	Left Ventricle	heart
3	chr3:112864600-112867600	Enhancers	Colon Smooth Muscle	Colon
4	chr3:112865200-112867000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr3:112865200-112871400	Enhancers	Fetal Stomach	stomach
6	chr3:112865400-112867000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:112865400-112867600	Enhancers	Skeletal Muscle Male	skeletal muscle
8	chr3:112865600-112870000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr3:112865600-112870000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr3:112865800-112867200	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr3:112865800-112870400	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr3:112866000-112867000	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr3:112866000-112868200	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr3:112866200-112868200	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr3:112866400-112867600	Enhancers	Adipose Nuclei	Adipose
16	chr3:112866400-112867800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr3:112866400-112867800	Enhancers	NHEK	skin
18	chr3:112866400-112869800	Enhancers	Fetal Muscle Leg	muscle
19	chr3:112866600-112867000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr3:112866600-112867000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr3:112866600-112867800	Enhancers	Fetal Kidney	kidney
22	chr3:112866600-112868000	Enhancers	Placenta Amnion	Placenta Amnion
23	chr3:112866600-112868200	Enhancers	Placenta	Placenta
24	chr3:112866600-112868200	Flanking Active TSS	Stomach Smooth Muscle	stomach
25	chr3:112866800-112867000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr3:112866800-112867000	Enhancers	Pancreas	Pancrea
27	chr3:112866800-112867400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr3:112866800-112867400	Flanking Active TSS	Fetal Muscle Trunk	muscle
29	chr3:112866800-112867600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr3:112866800-112867600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr3:112866800-112867600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr3:112866800-112867600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr3:112866800-112867600	Enhancers	Esophagus	oesophagus
34	chr3:112866800-112867600	Enhancers	Psoas Muscle	Psoas
35	chr3:112866800-112867600	Enhancers	Sigmoid Colon	Sigmoid Colon
36	chr3:112866800-112867600	Enhancers	Small Intestine	intestine
37	chr3:112866800-112867800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr3:112866800-112867800	Enhancers	Ovary	ovary
39	chr3:112866800-112867800	Flanking Active TSS	Rectal Smooth Muscle	rectum
40	chr3:112866800-112867800	Enhancers	HMEC	breast
41	chr3:112866800-112868000	Enhancers	Fetal Brain Female	brain
42	chr3:112866800-112868200	Enhancers	Cortex derived primary cultured neurospheres	brain
43	chr3:112866800-112868200	Enhancers	Fetal Lung	lung
44	chr3:112866800-112869600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links