Variant report

Variant	rs10198636
Chromosome Location	chr2:55186922-55186923
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:55184760..55187706-chr2:55190562..55193036,2	MCF-7	breast:
2	chr2:55186380..55189336-chr2:55191001..55193632,2	K562	blood:
3	chr2:55186295..55188752-chr2:55197497..55200388,2	K562	blood:

Variant related genes	Relation type
ENSG00000214595	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10196667	0.97[EUR][1000 genomes]
rs10205017	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10746530	0.99[EUR][1000 genomes]
rs11125551	0.99[EUR][1000 genomes]
rs12989576	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13023202	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2580763	0.98[ASN][1000 genomes]
rs2580766	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2588520	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2919125	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4233956	0.89[EUR][1000 genomes]
rs4504034	0.87[EUR][1000 genomes]
rs4525735	0.89[EUR][1000 genomes]
rs4671998	0.99[EUR][1000 genomes]
rs6545462	0.96[EUR][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	nsv834069	chr2:55096597-55251680	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv582029	chr2:55159043-55204498	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10198636	RTN4	cis	Thyroid	GTEx

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:55168800-55193400	Weak transcription	Primary B cells from peripheral blood	blood
2	chr2:55170400-55190400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr2:55173000-55193400	Weak transcription	Aorta	Aorta
4	chr2:55173200-55187000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr2:55173200-55203400	Weak transcription	Gastric	stomach
6	chr2:55173600-55194000	Weak transcription	Stomach Smooth Muscle	stomach
7	chr2:55173600-55195000	Weak transcription	Pancreas	Pancrea
8	chr2:55174800-55194000	Weak transcription	Brain Germinal Matrix	brain
9	chr2:55175400-55193200	Weak transcription	Fetal Brain Female	brain
10	chr2:55175600-55194600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr2:55175800-55193800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr2:55177800-55193800	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr2:55178200-55193400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr2:55178600-55193400	Weak transcription	Spleen	Spleen
15	chr2:55180400-55189600	Weak transcription	HSMMtube	muscle
16	chr2:55180600-55191600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr2:55180600-55193600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr2:55180600-55195400	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr2:55180600-55196000	Weak transcription	NH-A	brain
20	chr2:55180800-55191200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr2:55181600-55193600	Weak transcription	Lung	lung
22	chr2:55181600-55203400	Weak transcription	Ovary	ovary
23	chr2:55183000-55191600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr2:55183000-55191600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr2:55183000-55192000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr2:55183200-55193200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr2:55183200-55193200	Weak transcription	NHLF	lung
28	chr2:55183200-55206800	Weak transcription	Stomach Mucosa	stomach
29	chr2:55183400-55196600	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr2:55183800-55190400	Weak transcription	HepG2	liver
31	chr2:55183800-55190600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr2:55183800-55193600	Weak transcription	A549	lung
33	chr2:55184000-55189400	Weak transcription	Fetal Intestine Large	intestine
34	chr2:55184000-55189400	Weak transcription	Fetal Intestine Small	intestine
35	chr2:55184000-55192200	Weak transcription	Fetal Stomach	stomach
36	chr2:55184600-55188200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
37	chr2:55184800-55192400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr2:55184800-55195800	Weak transcription	Thymus	Thymus
39	chr2:55184800-55214800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr2:55185000-55190600	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr2:55185000-55192800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr2:55185200-55191000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr2:55185200-55191000	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr2:55185200-55191000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr2:55185200-55193400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr2:55185200-55194000	Weak transcription	H1 Cell Line	embryonic stem cell
47	chr2:55185400-55187800	Enhancers	Primary hematopoietic stem cells short term culture	blood
48	chr2:55185800-55188000	Enhancers	Primary hematopoietic stem cells	blood
49	chr2:55185800-55188000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr2:55185800-55188200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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