Variant report

Variant	rs401172
Chromosome Location	chr6:118611743-118611744
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs1034247	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs12192380	0.80[AMR][1000 genomes]
rs12210733	0.90[AMR][1000 genomes]
rs12210810	0.90[AMR][1000 genomes]
rs12212795	0.90[AMR][1000 genomes]
rs12215355	0.90[AMR][1000 genomes]
rs13199882	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs169465	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs1889465	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs1889466	0.85[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1931976	0.81[ASN][1000 genomes]
rs2050312	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs2050313	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs205917	0.81[ASN][1000 genomes]
rs205920	0.81[ASN][1000 genomes]
rs205923	0.81[ASN][1000 genomes]
rs2065707	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2095406	0.81[ASN][1000 genomes]
rs2105021	0.81[ASN][1000 genomes]
rs2184365	0.82[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2356078	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs281859	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs281862	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs281863	1.00[CHB][hapmap]
rs281865	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs281871	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs283043	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs283058	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs283059	0.85[EUR][1000 genomes]
rs283060	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs283063	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs283064	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs283090	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs283092	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs283095	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2883847	0.81[ASN][1000 genomes]
rs2883848	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs34479025	0.90[AMR][1000 genomes]
rs383574	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs406031	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs412995	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4245500	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs429084	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs430538	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs444666	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs454842	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs455227	0.81[ASN][1000 genomes]
rs455338	0.81[ASN][1000 genomes]
rs456384	1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs457162	1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs457210	0.81[ASN][1000 genomes]
rs458588	0.82[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs460399	0.81[ASN][1000 genomes]
rs465226	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs4945614	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs4945615	0.85[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs4945617	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs4946328	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs6911094	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs6917963	0.85[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6921633	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs6921657	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs6923286	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6933344	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs7745369	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs7748215	0.81[ASN][1000 genomes]
rs7768436	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs928598	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs928599	0.91[ASN][1000 genomes]
rs9320645	0.81[ASN][1000 genomes]
rs9481771	0.81[ASN][1000 genomes]
rs9481772	0.85[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9489324	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs9489325	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs980916	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[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	nsv530526	chr6:118027339-118718476	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv532051	chr6:118551027-119044197	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1020463	chr6:118593028-119146363	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:118606600-118613400	Weak transcription	Rectal Smooth Muscle	rectum
2	chr6:118607600-118614000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr6:118607600-118616000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:118607600-118617000	Weak transcription	Fetal Muscle Leg	muscle
5	chr6:118608200-118613400	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr6:118608400-118613400	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr6:118608400-118613400	Weak transcription	Stomach Smooth Muscle	stomach
8	chr6:118608600-118612800	Weak transcription	Colon Smooth Muscle	Colon
9	chr6:118609000-118616400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr6:118609400-118612600	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr6:118609800-118616600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:118610000-118614800	Weak transcription	Aorta	Aorta
13	chr6:118610200-118617200	Weak transcription	Left Ventricle	heart
14	chr6:118611200-118612400	Weak transcription	Fetal Heart	heart

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