Variant report

Variant	rs1938912
Chromosome Location	chr11:105800294-105800295
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:105799843-105800672	H1-neurons	neurons:	n/a	n/a
2	STAT3	chr11:105800288-105800421	MCF10A-Er-Src	breast:	n/a	n/a
3	GATA3	chr11:105800282-105801178	SK-N-SH	brain:	n/a	chr11:105800939-105800949 chr11:105800711-105800722 chr11:105800941-105800951 chr11:105800939-105800948 chr11:105800930-105800947 chr11:105800941-105800948 chr11:105801012-105801028
4	FOS	chr11:105800288-105800527	MCF10A-Er-Src	breast:	n/a	n/a
5	REST	chr11:105800005-105800606	H1-neurons	neurons:	n/a	n/a
6	POLR2A	chr11:105799847-105800618	H1-neurons	neurons:	n/a	n/a

Variant related genes	Relation type
ENSG00000263371	TF binding region
GRIA4	TF binding region

Extended variants
information (count: 76 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12099201	0.90[ASN][1000 genomes]
rs12573988	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12574754	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12575492	0.91[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12577871	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17104703	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17104711	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17104747	0.91[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17104765	0.88[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs17104807	0.88[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs17104830	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs17391232	0.91[CEU][hapmap];0.82[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17391295	1.00[CEU][hapmap];0.82[JPT][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17391463	1.00[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1938908	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1938910	0.91[CEU][hapmap];0.82[JPT][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1938913	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs1938914	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1939154	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1940965	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2155019	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2155021	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2226578	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2277279	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2277280	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2409608	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2508467	0.85[JPT][hapmap]
rs2509482	0.85[JPT][hapmap]
rs2898229	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2898230	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3737334	0.88[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs3758795	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3819079	0.88[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs41302411	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs474158	0.88[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs4754137	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4754138	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4755118	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4755119	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4755120	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4755121	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs502453	0.88[CHB][hapmap]
rs535532	1.00[CHB][hapmap]
rs539153	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs552767	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs585464	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs589904	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs602098	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs609239	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs611352	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs617950	0.89[CHB][hapmap];0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs674307	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs679914	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs7116745	0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs72976031	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72976037	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72978094	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72978096	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72979239	0.90[ASN][1000 genomes]
rs72979255	0.90[ASN][1000 genomes]
rs72979258	0.88[ASN][1000 genomes]
rs72979261	0.88[ASN][1000 genomes]
rs72979267	0.88[ASN][1000 genomes]
rs72979289	0.88[ASN][1000 genomes]
rs72979291	0.88[ASN][1000 genomes]
rs72979297	0.88[ASN][1000 genomes]
rs72979301	0.88[ASN][1000 genomes]
rs72981211	0.83[ASN][1000 genomes]
rs72981917	0.90[ASN][1000 genomes]
rs72981928	0.90[ASN][1000 genomes]
rs72981935	0.90[ASN][1000 genomes]
rs72981936	0.90[ASN][1000 genomes]
rs72981944	0.90[ASN][1000 genomes]
rs7933212	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7945345	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832257	chr11:105662753-105817576	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:105795000-105804600	Weak transcription	Brain Cingulate Gyrus	brain
2	chr11:105795200-105806800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr11:105795400-105805600	Weak transcription	Brain Substantia Nigra	brain
4	chr11:105795600-105805600	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr11:105796200-105800400	Weak transcription	Fetal Lung	lung
6	chr11:105797200-105806400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr11:105799400-105800600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr11:105799400-105801200	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr11:105799400-105810200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr11:105799800-105800400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr11:105799800-105801000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr11:105799800-105801000	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr11:105799800-105801000	Enhancers	Hela-S3	cervix
14	chr11:105799800-105801200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr11:105799800-105801200	Enhancers	Pancreatic Islets	Pancreatic Islet
16	chr11:105800000-105801000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr11:105800200-105801000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr11:105800200-105801000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr11:105800200-105801000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr11:105800200-105801000	Enhancers	Muscle Satellite Cultured Cells	--
21	chr11:105800200-105801200	Enhancers	Adipose Nuclei	Adipose

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