Variant report

Variant	rs11888902
Chromosome Location	chr2:9743035-9743036
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	chr2:9729206..9731620-chr2:9742153..9744799,2	K562	blood:

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs11902431	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12465158	0.86[EUR][1000 genomes]
rs12470619	0.86[EUR][1000 genomes]
rs12476008	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16867062	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16867073	0.95[EUR][1000 genomes]
rs16867074	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs41308184	0.88[EUR][1000 genomes]
rs4669401	0.86[EUR][1000 genomes]
rs62119390	0.86[EUR][1000 genomes]
rs62119425	0.89[EUR][1000 genomes]
rs62119430	0.95[EUR][1000 genomes]
rs6715408	0.88[EUR][1000 genomes]
rs73155523	0.89[AFR][1000 genomes]
rs7597961	0.82[AMR][1000 genomes];0.95[EUR][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	nsv580915	chr2:9308148-9844178	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11888902	LOC645233///LOC732360///TDG	trans	lymphoblastoid	RTeQTL

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:9696800-9767600	Weak transcription	Gastric	stomach
2	chr2:9719200-9747800	Weak transcription	Lung	lung
3	chr2:9732400-9747600	Weak transcription	Placenta	Placenta
4	chr2:9734000-9748000	Weak transcription	Pancreas	Pancrea
5	chr2:9734600-9748000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr2:9735200-9748400	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr2:9735400-9748000	Weak transcription	Aorta	Aorta
8	chr2:9735400-9748000	Weak transcription	Spleen	Spleen
9	chr2:9735600-9748400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr2:9735800-9747600	Weak transcription	Stomach Mucosa	stomach
11	chr2:9735800-9748200	Weak transcription	Ovary	ovary
12	chr2:9737000-9747800	Weak transcription	Rectal Smooth Muscle	rectum
13	chr2:9737000-9748000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr2:9737200-9747400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr2:9737200-9748000	Weak transcription	Small Intestine	intestine
16	chr2:9737400-9747600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr2:9737400-9747600	Weak transcription	Hela-S3	cervix
18	chr2:9737400-9747800	Weak transcription	Fetal Heart	heart
19	chr2:9738200-9743400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr2:9738200-9744400	ZNF genes & repeats	Brain Germinal Matrix	brain
21	chr2:9738400-9744800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr2:9739200-9747800	Weak transcription	Left Ventricle	heart
23	chr2:9739600-9747800	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr2:9739800-9747600	Weak transcription	Right Ventricle	heart
25	chr2:9739800-9747800	Weak transcription	Psoas Muscle	Psoas
26	chr2:9740000-9747800	Weak transcription	Colonic Mucosa	Colon
27	chr2:9740200-9747600	Weak transcription	Brain Cingulate Gyrus	brain
28	chr2:9740200-9748000	Weak transcription	Brain Hippocampus Middle	brain
29	chr2:9740200-9748400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
30	chr2:9740400-9743600	ZNF genes & repeats	Fetal Stomach	stomach
31	chr2:9740400-9747600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr2:9740400-9747600	Weak transcription	Brain Substantia Nigra	brain
33	chr2:9740400-9747800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr2:9740400-9747800	Weak transcription	Muscle Satellite Cultured Cells	--
35	chr2:9740400-9748000	Weak transcription	Brain Anterior Caudate	brain
36	chr2:9740400-9748000	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr2:9740400-9748400	Weak transcription	HSMMtube	muscle
38	chr2:9740600-9747600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr2:9740600-9747600	Weak transcription	Adipose Nuclei	Adipose
40	chr2:9740600-9747600	Weak transcription	Colon Smooth Muscle	Colon
41	chr2:9740600-9747600	Weak transcription	HUVEC	blood vessel
42	chr2:9740600-9747600	Weak transcription	NHLF	lung
43	chr2:9740600-9747800	Weak transcription	Primary neutrophils fromperipheralblood	blood
44	chr2:9740600-9748000	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr2:9740600-9748000	Weak transcription	Fetal Brain Male	brain
46	chr2:9741000-9747600	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr2:9741000-9747800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr2:9741000-9748000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr2:9741200-9743600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr2:9741200-9744000	Strong transcription	A549	lung

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