Variant report

Variant	rs10493603
Chromosome Location	chr1:77768778-77768779
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:77766400..77769347-chr1:77774174..77776470,2	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1010196	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10747353	0.93[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10782646	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs11162309	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs11162310	0.82[EUR][1000 genomes]
rs11162311	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11583735	0.84[CEU][hapmap];0.82[EUR][1000 genomes]
rs1167196	0.97[ASN][1000 genomes]
rs1167197	0.97[ASN][1000 genomes]
rs1167214	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs11806344	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs12030598	0.85[CHB][hapmap];0.88[CHD][hapmap];0.94[JPT][hapmap]
rs12077615	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12567557	0.80[CHD][hapmap];0.88[JPT][hapmap]
rs12751884	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1377738	0.87[ASN][1000 genomes]
rs1453975	0.89[ASN][1000 genomes]
rs1453982	0.97[ASN][1000 genomes]
rs2689680	0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs5018314	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs7512141	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7516300	0.99[ASN][1000 genomes]
rs7517051	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs7517698	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7547493	0.85[CHB][hapmap];0.88[CHD][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs7549462	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[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	nsv1005183	chr1:77728990-77949309	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv535010	chr1:77728990-77949309	Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv932557	chr1:77730247-77958687	Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1003714	chr1:77756861-77949309	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10493603	LRRIQ3	cis	parietal	SCAN

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:77749000-77779200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:77749200-77778400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr1:77749400-77781600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr1:77749800-77768800	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr1:77750600-77772400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr1:77754400-77785800	Weak transcription	Brain Cingulate Gyrus	brain
7	chr1:77755000-77768800	Strong transcription	NHDF-Ad	bronchial
8	chr1:77755200-77781600	Weak transcription	Osteobl	bone
9	chr1:77755800-77788200	Weak transcription	HSMMtube	muscle
10	chr1:77756800-77781600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr1:77757600-77777400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr1:77758000-77778400	Weak transcription	Brain Angular Gyrus	brain
13	chr1:77758600-77771000	Weak transcription	Brain Anterior Caudate	brain
14	chr1:77759000-77781600	Weak transcription	NHLF	lung
15	chr1:77763600-77769200	Weak transcription	Fetal Muscle Leg	muscle
16	chr1:77766000-77768800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr1:77767200-77768800	Weak transcription	Primary T cells from cord blood	blood
18	chr1:77767200-77773600	Weak transcription	HSMM	muscle
19	chr1:77767400-77769400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr1:77767400-77773400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr1:77767400-77774200	Weak transcription	Brain Hippocampus Middle	brain
22	chr1:77767600-77774400	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr1:77767600-77776600	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr1:77767800-77773400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr1:77768200-77769600	Enhancers	Primary T helper cells PMA-I stimulated	--

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