Variant report

Variant	rs7728109
Chromosome Location	chr5:112188094-112188095
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	chr5:112187455..112190392-chr5:112195264..112197441,4	MCF-7	breast:
2	chr5:112186187..112188435-chr5:112189268..112191839,2	K562	blood:

Variant related genes	Relation type
ENSG00000272869	Chromatin interaction
ENSG00000153037	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10058561	1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10515446	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs10519333	0.82[CHB][hapmap];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11555908	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11950612	0.84[JPT][hapmap]
rs12189	0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs13360640	1.00[EUR][1000 genomes]
rs17135066	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17135070	0.91[CHB][hapmap];0.84[YRI][hapmap];0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17135100	0.91[CHB][hapmap];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17135108	0.83[CHB][hapmap];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17135117	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17135149	0.91[CHB][hapmap];0.84[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17135155	0.91[CHB][hapmap];0.84[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17164132	1.00[JPT][hapmap]
rs1734242	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs1804197	0.95[ASN][1000 genomes]
rs2304793	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs2707761	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs2900065	0.85[ASN][1000 genomes]
rs3733961	0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3733963	0.91[CHB][hapmap];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3822652	0.90[CHB][hapmap];0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3822654	0.91[CHB][hapmap];0.84[YRI][hapmap];0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3892986	1.00[EUR][1000 genomes]
rs57726881	1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57749964	1.00[EUR][1000 genomes]
rs58625991	1.00[EUR][1000 genomes]
rs58865195	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59349522	1.00[EUR][1000 genomes]
rs6594652	0.92[CHB][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6864403	0.92[CHB][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6891448	0.86[JPT][hapmap]
rs728344	1.00[EUR][1000 genomes]
rs73227382	1.00[EUR][1000 genomes]
rs73227383	1.00[EUR][1000 genomes]
rs7703438	0.80[CHB][hapmap];0.86[JPT][hapmap]
rs7706623	0.85[JPT][hapmap]
rs7728481	0.86[CHB][hapmap];0.81[YRI][hapmap];0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7728766	0.91[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs7729562	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7730241	1.00[EUR][1000 genomes]
rs7735121	0.92[CHB][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9687790	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032464	chr5:112076061-112192380	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
2	nsv537862	chr5:112076061-112192380	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
3	esv33290	chr5:112110808-112238295	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv1029271	chr5:112113308-112325943	Strong transcription Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv1034239	chr5:112161239-112194693	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
6	nsv529536	chr5:112174106-112269758	Genic enhancers Strong transcription Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
7	nsv599394	chr5:112185491-112446323	Weak transcription Active TSS Strong transcription Genic enhancers Enhancers Flanking Active TSS 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	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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