Variant report

Variant	rs10899076
Chromosome Location	chr11:74857436-74857437
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TAF7	chr11:74857194-74857483	K562	blood:	n/a	n/a
2	TBP	chr11:74857278-74857500	K562	blood:	n/a	n/a
3	HEY1	chr11:74856893-74857449	K562	blood:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:74850392..74852587-chr11:74855694..74858278,2	MCF-7	breast:
2	chr11:74855408..74858303-chr11:74861375..74864283,3	K562	blood:
3	chr11:74856309..74859040-chr11:74914787..74916343,2	MCF-7	breast:
4	chr11:74851665..74854336-chr11:74855499..74858438,2	MCF-7	breast:
5	chr11:74856690..74858303-chr11:74861317..74863016,2	K562	blood:
6	chr11:74856790..74858510-chr11:74872953..74874736,2	K562	blood:
7	chr11:74855263..74857474-chr11:74861405..74863730,2	MCF-7	breast:

No data

Variant related genes	Relation type
SLCO2B1	TF binding region
ENSG00000137491	Chromatin interaction
ENSG00000255395	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10793114	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899077	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10899078	0.95[CEU][hapmap];0.87[CHB][hapmap];0.92[CHD][hapmap];0.98[GIH][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.94[TSI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10899079	0.83[MEX][hapmap];0.82[AMR][1000 genomes]
rs11236348	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236349	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236350	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236351	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236352	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236353	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11236354	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11236356	0.88[MEX][hapmap]
rs11236357	0.95[CEU][hapmap];0.87[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];0.87[MEX][hapmap];0.94[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11236361	0.83[MEX][hapmap];0.82[AMR][1000 genomes]
rs11236365	0.81[CEU][hapmap];0.86[EUR][1000 genomes]
rs11822379	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11827488	0.83[CHB][hapmap]
rs12361277	0.84[ASN][1000 genomes]
rs4100076	0.86[CHB][hapmap];0.81[CHD][hapmap];0.80[GIH][hapmap];0.90[JPT][hapmap];0.88[MEX][hapmap];0.83[AMR][1000 genomes]
rs4944073	0.83[AMR][1000 genomes]
rs4944074	0.91[CEU][hapmap];0.89[EUR][1000 genomes]
rs4944974	0.86[CHB][hapmap]
rs4944975	0.95[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.97[TSI][hapmap]
rs4944990	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4944991	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.94[TSI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4944992	0.95[CEU][hapmap];0.87[CHB][hapmap];0.92[CHD][hapmap];0.98[GIH][hapmap];0.82[JPT][hapmap];0.96[MEX][hapmap];0.94[TSI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4944993	0.88[MEX][hapmap];0.83[AMR][1000 genomes]
rs4944994	0.95[CEU][hapmap];0.87[CHB][hapmap];0.85[CHD][hapmap];0.93[GIH][hapmap];0.92[MEX][hapmap];0.94[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57073688	0.82[AMR][1000 genomes]
rs59633704	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6592602	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs67904312	0.83[AMR][1000 genomes]
rs67947132	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7125268	0.81[CEU][hapmap];0.87[EUR][1000 genomes]
rs72996586	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs881217	0.83[MEX][hapmap];0.81[AMR][1000 genomes]
rs949069	0.86[CEU][hapmap];0.83[CHB][hapmap];0.85[CHD][hapmap];0.87[MEX][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[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	nsv526053	chr11:74857436-74861545	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10899076	FCHSD2	cis	cerebellum	SCAN
rs10899076	UVRAG	cis	parietal	SCAN
rs10899076	PDE2A	cis	parietal	SCAN

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:74852000-74861600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr11:74852400-74858200	Weak transcription	Esophagus	oesophagus
3	chr11:74852400-74861000	Weak transcription	Stomach Mucosa	stomach
4	chr11:74853800-74857800	Enhancers	Duodenum Mucosa	Duodenum
5	chr11:74853800-74860200	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr11:74853800-74862000	Enhancers	HepG2	liver
7	chr11:74853800-74862200	Enhancers	Placenta	Placenta
8	chr11:74854000-74862000	Enhancers	Fetal Intestine Large	intestine
9	chr11:74854400-74857600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr11:74854400-74858400	Weak transcription	Left Ventricle	heart
11	chr11:74854400-74858400	Weak transcription	Right Atrium	heart
12	chr11:74854400-74858400	Weak transcription	Right Ventricle	heart
13	chr11:74855200-74862200	Enhancers	Fetal Intestine Small	intestine
14	chr11:74855400-74857800	Weak transcription	Brain Anterior Caudate	brain
15	chr11:74855600-74858200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr11:74855600-74858200	Weak transcription	Spleen	Spleen
17	chr11:74855600-74861200	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr11:74855600-74861600	Weak transcription	Brain Cingulate Gyrus	brain
19	chr11:74855800-74857800	Weak transcription	Fetal Muscle Leg	muscle
20	chr11:74855800-74858000	Weak transcription	Fetal Thymus	thymus
21	chr11:74855800-74858200	Weak transcription	Liver	Liver
22	chr11:74855800-74858200	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr11:74855800-74858400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr11:74855800-74858800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr11:74855800-74858800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr11:74856000-74857800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr11:74856000-74857800	Weak transcription	Lung	lung
28	chr11:74856000-74858400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr11:74856000-74858800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr11:74856200-74860200	Enhancers	Rectal Mucosa Donor 29	rectum
31	chr11:74856400-74859200	Enhancers	K562	blood
32	chr11:74856400-74859600	Enhancers	Colonic Mucosa	Colon
33	chr11:74856600-74858600	Weak transcription	Brain Hippocampus Middle	brain
34	chr11:74856600-74863400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr11:74857000-74857800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr11:74857000-74859400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr11:74857000-74860000	Enhancers	Adipose Nuclei	Adipose
38	chr11:74857400-74858600	Enhancers	Sigmoid Colon	Sigmoid Colon
39	chr11:74857400-74859000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr11:74857400-74865600	Weak transcription	Small Intestine	intestine

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