Variant report

Variant	rs2744303
Chromosome Location	chr6:25327149-25327150
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	chr6:25318943..25320704-chr6:25326151..25329125,2	K562	blood:
2	chr6:25326407..25328243-chr6:25331824..25333958,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs12055533	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs12196702	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1989206	0.83[ASN][1000 genomes]
rs2143022	0.89[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2252012	0.82[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2328878	0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs2690109	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2690115	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2690120	0.81[JPT][hapmap];0.86[YRI][hapmap];0.83[ASN][1000 genomes]
rs2690123	0.83[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2690125	0.82[JPT][hapmap];0.84[YRI][hapmap];0.84[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2690127	0.82[AFR][1000 genomes]
rs2690129	0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs2690131	0.81[ASN][1000 genomes]
rs2744290	0.81[JPT][hapmap]
rs2744296	0.82[ASN][1000 genomes]
rs2744299	0.90[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs2744302	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4712908	0.82[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs9348670	0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs9356973	0.81[ASN][1000 genomes]
rs9358850	0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs9358851	0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs9379751	0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs9467465	0.81[JPT][hapmap];0.83[ASN][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	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv883486	chr6:25260434-25422369	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25306600-25331400	Weak transcription	Spleen	Spleen
2	chr6:25313400-25329800	Weak transcription	Primary T cells from cord blood	blood
3	chr6:25313800-25331400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr6:25315400-25329600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr6:25321000-25329400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:25321000-25329600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr6:25321000-25331400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr6:25321200-25329200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr6:25321200-25329400	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr6:25321200-25329400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:25321600-25329200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr6:25321600-25329400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr6:25321600-25329600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr6:25321600-25329800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr6:25321600-25341200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr6:25323000-25333200	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr6:25324400-25327200	Weak transcription	Stomach Mucosa	stomach
18	chr6:25324600-25328000	Weak transcription	Brain Germinal Matrix	brain
19	chr6:25324600-25329200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr6:25324600-25329600	Weak transcription	Brain Substantia Nigra	brain
21	chr6:25324600-25330400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr6:25324600-25331600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr6:25325000-25327400	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr6:25325000-25329400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr6:25325000-25331600	Weak transcription	Adipose Nuclei	Adipose
26	chr6:25325200-25327200	Weak transcription	Fetal Intestine Large	intestine
27	chr6:25325200-25327200	Weak transcription	Ovary	ovary
28	chr6:25325200-25327200	Weak transcription	Right Atrium	heart
29	chr6:25325200-25327400	Weak transcription	Fetal Intestine Small	intestine
30	chr6:25325200-25327600	Enhancers	iPS-15b Cell Line	embryonic stem cell
31	chr6:25325200-25328800	Enhancers	Fetal Heart	heart
32	chr6:25325200-25329400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
33	chr6:25325200-25330200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:25325200-25330200	Weak transcription	Esophagus	oesophagus
35	chr6:25325200-25331400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr6:25325200-25331400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr6:25325200-25331400	Weak transcription	Placenta	Placenta
38	chr6:25325200-25331400	Weak transcription	Pancreas	Pancrea
39	chr6:25325200-25331400	Weak transcription	HSMMtube	muscle
40	chr6:25325200-25336400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:25325200-25336400	Weak transcription	Lung	lung
42	chr6:25325600-25327200	Weak transcription	Fetal Brain Female	brain
43	chr6:25326000-25327200	Weak transcription	Fetal Lung	lung
44	chr6:25326200-25327200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr6:25326200-25328000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr6:25326600-25327600	Enhancers	Small Intestine	intestine
47	chr6:25326600-25327800	Enhancers	Aorta	Aorta
48	chr6:25326600-25328600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr6:25326600-25329200	Enhancers	Cortex derived primary cultured neurospheres	brain
50	chr6:25326800-25327200	Enhancers	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links