Variant report

Variant	rs11097148
Chromosome Location	chr4:88308415-88308416
allele	G/T
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	RXRA	chr4:88308403-88308723	HepG2	liver:	n/a	chr4:88308532-88308551 chr4:88308530-88308552 chr4:88308532-88308546

Variant related genes	Relation type
RN7SL681P	TF binding region

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11945520	1.00[CHB][hapmap]
rs4305486	1.00[CHB][hapmap]
rs4435709	1.00[ASN][1000 genomes]
rs4585263	1.00[ASN][1000 genomes]
rs55721398	1.00[ASN][1000 genomes]
rs55806847	1.00[ASN][1000 genomes]
rs56156416	1.00[ASN][1000 genomes]
rs56354112	1.00[ASN][1000 genomes]
rs57124432	1.00[ASN][1000 genomes]
rs62319109	1.00[ASN][1000 genomes]
rs62319110	1.00[ASN][1000 genomes]
rs6531974	1.00[CHB][hapmap]
rs6531985	1.00[CHB][hapmap]
rs6811010	1.00[CHB][hapmap]
rs6817185	1.00[ASN][1000 genomes]
rs6817242	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6833678	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6834947	1.00[CHB][hapmap]
rs6839488	1.00[ASN][1000 genomes]
rs6839620	1.00[ASN][1000 genomes]
rs6840102	1.00[ASN][1000 genomes]
rs6840247	1.00[CHB][hapmap]
rs6846149	1.00[CHB][hapmap]
rs6849846	1.00[CHB][hapmap]
rs6850337	1.00[CHB][hapmap]
rs7661455	1.00[ASN][1000 genomes]
rs7662471	1.00[CHB][hapmap]
rs7664479	1.00[CHB][hapmap]
rs7668285	1.00[CHB][hapmap]
rs7676494	1.00[CHB][hapmap]
rs7677036	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7682516	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7682892	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9684766	1.00[CHB][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004518	chr4:88218473-88354403	Weak transcription Active TSS Genic enhancers Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv1002789	chr4:88239340-88606485	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:88254800-88311800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr4:88256200-88310600	Weak transcription	Right Ventricle	heart
3	chr4:88257800-88311800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr4:88276200-88311400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:88291000-88309000	Weak transcription	Right Atrium	heart
6	chr4:88293000-88308800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr4:88293000-88309600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr4:88293000-88311200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr4:88293200-88309600	Weak transcription	Brain Hippocampus Middle	brain
10	chr4:88293200-88309600	Weak transcription	Gastric	stomach
11	chr4:88293200-88311400	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr4:88293400-88309800	Weak transcription	Brain Anterior Caudate	brain
13	chr4:88294000-88309400	Weak transcription	NHLF	lung
14	chr4:88294000-88309600	Weak transcription	Colon Smooth Muscle	Colon
15	chr4:88294000-88311000	Weak transcription	HSMM	muscle
16	chr4:88294200-88310800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr4:88294800-88309400	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr4:88295200-88309400	Weak transcription	Stomach Smooth Muscle	stomach
19	chr4:88295400-88311200	Weak transcription	Aorta	Aorta
20	chr4:88296200-88309000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr4:88297400-88309400	Weak transcription	Brain Substantia Nigra	brain
22	chr4:88297400-88309600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr4:88297400-88309600	Weak transcription	A549	lung
24	chr4:88297400-88310000	Weak transcription	NHDF-Ad	bronchial
25	chr4:88297400-88310600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr4:88297400-88310800	Weak transcription	Osteobl	bone
27	chr4:88302800-88312000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr4:88303200-88309200	Weak transcription	Primary T cells from cord blood	blood
29	chr4:88303200-88309400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr4:88303200-88309400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr4:88303400-88309000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr4:88303400-88309400	Weak transcription	Thymus	Thymus
33	chr4:88303600-88309400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr4:88303600-88310400	Weak transcription	Fetal Muscle Trunk	muscle
35	chr4:88303600-88310400	Weak transcription	Placenta	Placenta
36	chr4:88303800-88309400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr4:88304600-88310000	ZNF genes & repeats	Fetal Intestine Small	intestine
38	chr4:88304800-88309400	Weak transcription	Adipose Nuclei	Adipose
39	chr4:88306200-88309200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr4:88306800-88309600	Weak transcription	HSMMtube	muscle
41	chr4:88307000-88309000	Enhancers	Primary monocytes fromperipheralblood	blood
42	chr4:88307000-88309600	Weak transcription	Fetal Thymus	thymus
43	chr4:88307200-88308800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
44	chr4:88307200-88309400	Enhancers	Pancreas	Pancrea
45	chr4:88307200-88309600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
46	chr4:88307200-88309600	Weak transcription	Psoas Muscle	Psoas
47	chr4:88307200-88309800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
48	chr4:88307400-88308800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
49	chr4:88307600-88310200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
50	chr4:88307600-88310600	Enhancers	Primary T cells fromperipheralblood	blood

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