Variant report

Variant	rs2027537
Chromosome Location	chr1:113948608-113948609
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:113942868..113944463-chr1:113947032..113948985,2	K562	blood:
2	chr1:113941512..113944463-chr1:113944848..113948985,5	K562	blood:
3	chr1:113946741..113949404-chr1:114031617..114034650,3	K562	blood:
4	chr1:113948129..113949831-chr1:113997771..113999315,2	MCF-7	breast:
5	chr1:113930552..113936083-chr1:113941902..113950756,10	MCF-7	breast:
6	chr1:113932349..113934088-chr1:113947050..113948907,2	K562	blood:

Variant related genes	Relation type
ENSG00000081026	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10458458	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10458459	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10857994	1.00[CHB][hapmap];0.96[JPT][hapmap];0.84[ASN][1000 genomes]
rs11102627	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11102628	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11102630	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11102636	0.81[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs11102637	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs11102638	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs11102639	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11102640	0.80[EUR][1000 genomes]
rs11102641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs11102644	0.82[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs11102647	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1112085	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1112543	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12021783	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12022213	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs12022849	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12023641	0.93[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12024139	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12024428	0.99[ASN][1000 genomes]
rs12025806	0.82[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs12026005	0.80[EUR][1000 genomes]
rs12026682	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12029305	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12030900	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12032395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12033666	0.80[EUR][1000 genomes]
rs12034178	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12038473	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs12038754	0.80[EUR][1000 genomes]
rs12038879	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12039226	0.80[EUR][1000 genomes]
rs12039603	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12039669	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs12039944	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs12044485	0.81[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs12045148	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12045559	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes]
rs12046450	0.80[EUR][1000 genomes]
rs12046451	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12048327	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12049093	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12049447	0.93[CEU][hapmap];0.81[CHB][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12567622	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12568854	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1418607	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1539411	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1573996	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs1936926	0.80[EUR][1000 genomes]
rs1936927	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs1936928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs2027536	0.97[ASN][1000 genomes]
rs2051083	0.82[AFR][1000 genomes]
rs4838987	0.82[AMR][1000 genomes]
rs4838988	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4839320	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4839323	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4839324	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs55737954	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66565865	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6688827	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs72687924	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72687938	0.82[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs72687939	0.82[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs72687944	0.80[EUR][1000 genomes]
rs72687947	0.80[EUR][1000 genomes]
rs72687948	0.80[EUR][1000 genomes]
rs72687949	0.80[EUR][1000 genomes]
rs72687960	0.82[AFR][1000 genomes]
rs7413018	0.80[EUR][1000 genomes]
rs9787276	0.99[ASN][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	nsv427719	chr1:113570229-114078388	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
2	nsv999873	chr1:113840351-113949453	Enhancers Flanking Active TSS Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	17 gene(s)	inside rSNPs	diseases
3	nsv1010110	chr1:113856612-113969417	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	17 gene(s)	inside rSNPs	diseases
4	nsv1014757	chr1:113861524-113969417	Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:113935200-113949400	Weak transcription	Fetal Muscle Leg	muscle
2	chr1:113935600-113949400	Weak transcription	Aorta	Aorta
3	chr1:113936000-113952400	Weak transcription	Fetal Stomach	stomach
4	chr1:113937600-113963400	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr1:113939800-113953400	Weak transcription	NHDF-Ad	bronchial
6	chr1:113940200-113952200	Weak transcription	HMEC	breast
7	chr1:113940200-113987000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr1:113940800-113950000	Weak transcription	Fetal Intestine Large	intestine
9	chr1:113940800-113952200	Weak transcription	Hela-S3	cervix
10	chr1:113941800-113952200	Weak transcription	Colon Smooth Muscle	Colon
11	chr1:113944600-113950600	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr1:113944600-113958200	Weak transcription	Small Intestine	intestine
13	chr1:113944800-113950200	Weak transcription	A549	lung
14	chr1:113944800-113952200	Weak transcription	Stomach Mucosa	stomach
15	chr1:113946000-113949600	Weak transcription	Ovary	ovary
16	chr1:113947000-113950400	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr1:113947000-113952400	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr1:113947200-113949200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr1:113947600-113948800	Enhancers	Primary T cells from cord blood	blood
20	chr1:113947800-113948800	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr1:113948000-113953400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr1:113948000-113969800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr1:113948400-113950200	Weak transcription	Liver	Liver
24	chr1:113948600-113949600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr1:113948600-113950600	Weak transcription	Fetal Kidney	kidney
26	chr1:113948600-113953400	Weak transcription	Pancreatic Islets	Pancreatic Islet

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