Variant report

Variant	rs1398092
Chromosome Location	chr3:112365228-112365229
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:112357844..112361438-chr3:112364098..112368101,7	MCF-7	breast:
2	chr3:112358518..112360693-chr3:112363292..112365603,2	K562	blood:
3	chr3:112362227..112366265-chr3:112408651..112412487,6	MCF-7	breast:
4	chr3:112364416..112367219-chr3:112696303..112699489,3	MCF-7	breast:
5	chr3:112364472..112367119-chr3:112708637..112711518,2	MCF-7	breast:
6	chr3:112361572..112365675-chr3:112707892..112711353,4	MCF-7	breast:
7	chr3:112363876..112366126-chr3:112709800..112712751,2	K562	blood:

Variant related genes	Relation type
ENSG00000272844	Chromatin interaction
ENSG00000163607	Chromatin interaction
ENSG00000091986	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1154272	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs1249913	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs1488263	1.00[YRI][hapmap]
rs2705540	1.00[YRI][hapmap]
rs2931761	1.00[YRI][hapmap]
rs4682113	0.81[AFR][1000 genomes]
rs6809467	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs7373716	0.81[AFR][1000 genomes]
rs7624745	0.81[AFR][1000 genomes]
rs820570	0.81[AFR][1000 genomes]
rs981180	1.00[YRI][hapmap]
rs981182	1.00[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3329419	chr3:112236688-112620544	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112358600-112365400	Weak transcription	Lung	lung
2	chr3:112359600-112365400	Weak transcription	Pancreas	Pancrea
3	chr3:112360800-112365600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr3:112360800-112367800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr3:112361000-112365800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr3:112362200-112365600	Weak transcription	Hela-S3	cervix
7	chr3:112362200-112366000	Weak transcription	Ovary	ovary
8	chr3:112362400-112365400	Weak transcription	Fetal Heart	heart
9	chr3:112362400-112367600	Weak transcription	Primary hematopoietic stem cells	blood
10	chr3:112362400-112367800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr3:112362800-112365400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr3:112362800-112365400	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr3:112362800-112365400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr3:112362800-112366800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr3:112362800-112367800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr3:112363000-112365400	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr3:112363000-112365400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr3:112363000-112365400	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr3:112363200-112365600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr3:112363400-112365400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr3:112363400-112365400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr3:112363400-112373600	Weak transcription	Esophagus	oesophagus
23	chr3:112363600-112365400	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr3:112363600-112365400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr3:112363600-112365400	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr3:112363600-112365400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr3:112363600-112365400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr3:112363600-112365400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr3:112363600-112365400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr3:112363600-112365600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:112363600-112365600	Weak transcription	K562	blood
32	chr3:112363600-112365800	Weak transcription	Fetal Kidney	kidney
33	chr3:112363800-112368000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr3:112364600-112365800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr3:112364600-112372800	Enhancers	Osteobl	bone
36	chr3:112364800-112366200	Enhancers	Stomach Smooth Muscle	stomach
37	chr3:112364800-112366200	Enhancers	HSMM	muscle
38	chr3:112364800-112366400	Enhancers	Rectal Smooth Muscle	rectum
39	chr3:112365000-112365600	Enhancers	Muscle Satellite Cultured Cells	--
40	chr3:112365000-112365800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr3:112365000-112366200	Enhancers	HSMMtube	muscle
42	chr3:112365000-112366600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr3:112365000-112367000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr3:112365000-112367200	Enhancers	Adipose Nuclei	Adipose
45	chr3:112365000-112367200	Enhancers	NH-A	brain
46	chr3:112365000-112370600	Enhancers	NHLF	lung
47	chr3:112365200-112365600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr3:112365200-112365600	Enhancers	Psoas Muscle	Psoas
49	chr3:112365200-112365800	Enhancers	ES-I3 Cell Line	embryonic stem cell
50	chr3:112365200-112366000	Enhancers	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links