Variant report

Variant	rs10254460
Chromosome Location	chr7:26781553-26781554
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs10085562	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10226612	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10227575	0.87[EUR][1000 genomes]
rs10231080	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10231691	0.85[YRI][hapmap];0.82[AFR][1000 genomes]
rs10232327	0.82[AFR][1000 genomes]
rs10235680	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs10238067	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10244462	1.00[CEU][hapmap]
rs10246300	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10246483	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10246578	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10247117	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10248232	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10249383	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs10250097	1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs10250304	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10250321	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10251817	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10252268	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs10254467	1.00[CEU][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10257057	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10257194	0.82[AFR][1000 genomes]
rs10258711	0.84[YRI][hapmap];0.82[AFR][1000 genomes]
rs10261927	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10262212	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes]
rs10262527	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10262797	0.85[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs10265607	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10265721	0.84[YRI][hapmap];0.80[AFR][1000 genomes]
rs10271306	1.00[JPT][hapmap]
rs10271393	1.00[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs10277060	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs10280403	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1030647	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10486473	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10486474	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10486476	0.85[YRI][hapmap];0.82[AFR][1000 genomes]
rs10486480	0.85[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs10486481	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs11772673	0.95[YRI][hapmap];0.86[AFR][1000 genomes]
rs12155150	0.91[EUR][1000 genomes]
rs12333409	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12333690	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12334046	0.84[YRI][hapmap];0.83[AFR][1000 genomes]
rs12334154	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13234201	0.95[YRI][hapmap];0.86[AFR][1000 genomes]
rs13234336	0.95[YRI][hapmap];0.86[AFR][1000 genomes]
rs1548482	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs17154428	1.00[JPT][hapmap];0.95[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17154538	0.85[CEU][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17310268	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17310851	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17310907	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs17313134	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17323962	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes]
rs17370293	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17371905	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2195902	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28414527	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28465643	0.87[EUR][1000 genomes]
rs28645143	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28781274	0.87[EUR][1000 genomes]
rs34616067	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3735547	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3801835	1.00[JPT][hapmap]
rs4141345	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4141346	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59738260	0.86[ASN][1000 genomes]
rs61636979	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67719086	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6950668	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6954621	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6961653	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6961904	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73069515	0.81[EUR][1000 genomes]
rs73073794	0.87[EUR][1000 genomes]
rs73079514	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7779269	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7781784	1.00[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7782851	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7783807	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7784380	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7786308	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7786456	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7806174	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9648328	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9648329	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9648332	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9648333	0.92[EUR][1000 genomes];0.87[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	nsv1025538	chr7:26482342-27376045	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
2	nsv538805	chr7:26482342-27376045	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
3	nsv1018125	chr7:26745074-26789814	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26740400-26782400	Weak transcription	Fetal Intestine Small	intestine
2	chr7:26750400-26812000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr7:26753600-26782200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr7:26754400-26782400	Weak transcription	Fetal Stomach	stomach
5	chr7:26754800-26783200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr7:26755600-26782400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr7:26776200-26800000	Weak transcription	Primary hematopoietic stem cells	blood
8	chr7:26777000-26782800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr7:26777800-26782000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr7:26779200-26783600	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr7:26779200-26787200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr7:26779400-26782800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr7:26779600-26782200	Weak transcription	Adipose Nuclei	Adipose
14	chr7:26779600-26810600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr7:26779800-26782800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr7:26779800-26798600	Weak transcription	Primary B cells from cord blood	blood
17	chr7:26779800-26809000	Weak transcription	Primary B cells from peripheral blood	blood
18	chr7:26780200-26783400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr7:26780200-26784200	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr7:26780600-26782400	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr7:26780800-26797400	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr7:26781000-26809200	Weak transcription	Monocytes-CD14+_RO01746	blood

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