Variant report

Variant	rs7667001
Chromosome Location	chr4:100496105-100496106
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11097666	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13129571	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13135675	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13135826	1.00[CEU][hapmap];0.82[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13142452	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13151234	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17029189	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17029211	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17029213	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17029215	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17029260	0.89[EUR][1000 genomes]
rs17029263	0.89[EUR][1000 genomes]
rs34135026	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34246356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34678000	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34734558	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34756677	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34777713	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34870956	0.89[EUR][1000 genomes]
rs34874297	0.89[EUR][1000 genomes]
rs35074439	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35189300	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35391161	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35402611	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35561084	0.83[EUR][1000 genomes]
rs35595171	0.83[EUR][1000 genomes]
rs35661838	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35824615	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35826214	0.89[EUR][1000 genomes]
rs35992230	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41275719	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6532821	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6821960	1.00[CEU][hapmap]
rs6825904	0.89[EUR][1000 genomes]
rs6851824	0.89[EUR][1000 genomes]
rs71612697	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71612700	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71612702	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71614603	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71614604	0.83[AMR][1000 genomes]
rs71619723	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7665414	1.00[CEU][hapmap];0.82[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7688278	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7695727	0.89[EUR][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	nsv879656	chr4:99976646-100533722	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv933074	chr4:100460951-100630600	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	esv1833664	chr4:100495571-100504985	Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:100495000-100496400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
2	chr4:100495400-100496200	Flanking Active TSS	Liver	Liver
3	chr4:100495400-100497000	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr4:100495600-100497000	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr4:100495600-100497200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr4:100495600-100500400	Active TSS	Fetal Intestine Large	intestine
7	chr4:100495800-100496200	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr4:100495800-100496200	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
9	chr4:100495800-100496200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr4:100495800-100496200	Enhancers	Colon Smooth Muscle	Colon
11	chr4:100495800-100496200	Active TSS	Rectal Smooth Muscle	rectum
12	chr4:100495800-100496200	Enhancers	Stomach Mucosa	stomach
13	chr4:100495800-100496400	Enhancers	H1 Cell Line	embryonic stem cell
14	chr4:100495800-100496400	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr4:100495800-100496400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
16	chr4:100495800-100496400	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr4:100495800-100496400	Enhancers	Primary B cells from cord blood	blood
18	chr4:100495800-100496400	Active TSS	Brain Anterior Caudate	brain
19	chr4:100495800-100496400	Flanking Active TSS	Stomach Smooth Muscle	stomach
20	chr4:100495800-100496600	Enhancers	Primary B cells from peripheral blood	blood
21	chr4:100495800-100496600	Active TSS	Aorta	Aorta
22	chr4:100495800-100496600	Active TSS	Ovary	ovary
23	chr4:100495800-100496600	Flanking Active TSS	GM12878-XiMat	blood
24	chr4:100495800-100500400	Active TSS	Fetal Intestine Small	intestine
25	chr4:100495800-100500800	Active TSS	Duodenum Mucosa	Duodenum
26	chr4:100496000-100496200	Bivalent Enhancer	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr4:100496000-100496400	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
28	chr4:100496000-100496400	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
29	chr4:100496000-100496400	Active TSS	Brain Substantia Nigra	brain
30	chr4:100496000-100496600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
31	chr4:100496000-100497000	Active TSS	Fetal Kidney	kidney
32	chr4:100496000-100497200	Active TSS	Duodenum Smooth Muscle	Duodenum
33	chr4:100496000-100497600	Active TSS	HepG2	liver

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