Variant report

Variant	rs6744742
Chromosome Location	chr2:189331306-189331307
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:189329502..189332485-chr2:189340700..189342982,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10185493	1.00[AMR][1000 genomes]
rs10188279	1.00[AMR][1000 genomes]
rs10211425	0.83[YRI][hapmap]
rs10432433	0.92[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10804022	0.92[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10931365	0.91[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11904835	0.92[YRI][hapmap]
rs13391799	0.82[YRI][hapmap]
rs13392080	0.83[YRI][hapmap]
rs13393442	0.82[YRI][hapmap]
rs13399616	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13399903	0.83[YRI][hapmap]
rs13401321	0.83[YRI][hapmap]
rs13403508	0.92[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13411541	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13414813	0.83[YRI][hapmap]
rs13418323	0.89[YRI][hapmap]
rs13424443	0.80[YRI][hapmap]
rs13426900	1.00[AMR][1000 genomes]
rs4667230	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4667232	0.92[YRI][hapmap]
rs6434282	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6434283	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6434284	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6434287	0.91[YRI][hapmap];0.87[AFR][1000 genomes]
rs6736780	0.92[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6742748	0.82[YRI][hapmap]
rs6761280	0.92[YRI][hapmap]
rs7423329	0.91[YRI][hapmap];0.83[AFR][1000 genomes]
rs7423378	0.91[YRI][hapmap];0.85[AFR][1000 genomes]
rs7580259	0.91[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7589600	0.83[YRI][hapmap]
rs7592288	0.92[YRI][hapmap]
rs7593824	0.91[YRI][hapmap];1.00[AMR][1000 genomes]

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	nsv534341	chr2:189200405-189368467	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv533786	chr2:189248503-189354495	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv584055	chr2:189266823-189493686	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv834489	chr2:189329027-189494224	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:189306600-189339000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr2:189319400-189343400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr2:189321800-189339000	Weak transcription	Fetal Stomach	stomach
4	chr2:189328400-189334000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr2:189329000-189340600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr2:189329200-189399000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr2:189329800-189333200	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr2:189330000-189331800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr2:189330000-189332800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr2:189330600-189333600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr2:189330600-189333800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr2:189330600-189336600	Weak transcription	Psoas Muscle	Psoas
13	chr2:189330600-189346800	Weak transcription	Gastric	stomach
14	chr2:189330600-189356600	Weak transcription	Fetal Intestine Small	intestine
15	chr2:189330800-189331800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr2:189330800-189333600	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr2:189330800-189336400	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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