Variant report

Variant	rs10849888
Chromosome Location	chr12:121892786-121892787
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:121890806..121892891-chr12:121895459..121897017,2	K562	blood:
2	chr12:121888904..121894167-chr12:121900825..121906643,6	K562	blood:
3	chr12:121891205..121893580-chr12:121898932..121901141,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10444489	0.86[LWK][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs10444490	0.82[EUR][1000 genomes]
rs10444492	0.82[AFR][1000 genomes]
rs1064951	0.86[LWK][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs10744762	0.85[CEU][hapmap];0.83[MEX][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes]
rs10774592	0.81[CEU][hapmap]
rs10774595	0.82[AFR][1000 genomes]
rs10774598	0.84[ASW][hapmap];0.90[LWK][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes]
rs10849882	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs10849884	0.82[AFR][1000 genomes]
rs10849885	0.86[LWK][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs10849886	0.85[CEU][hapmap];0.84[TSI][hapmap];0.83[EUR][1000 genomes]
rs10849890	0.85[CEU][hapmap];0.87[MEX][hapmap];0.86[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11065569	0.85[EUR][1000 genomes]
rs11065575	0.86[LWK][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs11065576	1.00[YRI][hapmap]
rs11065578	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs11065579	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs11065582	0.88[AFR][1000 genomes]
rs12427382	0.86[LWK][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs12581861	0.82[AFR][1000 genomes]
rs2288154	0.86[LWK][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs3751131	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs3817543	0.84[ASW][hapmap];0.90[LWK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs3817544	0.86[LWK][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs3817545	0.82[AFR][1000 genomes]
rs3817546	0.82[AFR][1000 genomes]
rs3817551	0.86[LWK][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs57889600	0.82[AFR][1000 genomes]
rs58849369	0.82[AFR][1000 genomes]
rs59103597	0.82[AFR][1000 genomes]
rs6489811	0.85[CEU][hapmap];0.87[MEX][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7134248	0.85[CEU][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7296507	0.81[CEU][hapmap];0.83[MEX][hapmap];0.84[TSI][hapmap]
rs7302836	0.82[EUR][1000 genomes]
rs7961855	0.85[CEU][hapmap];0.80[EUR][1000 genomes]
rs7962128	0.81[EUR][1000 genomes]
rs7962143	0.81[CEU][hapmap]
rs7980819	0.85[CEU][hapmap];0.83[MEX][hapmap];0.86[TSI][hapmap];0.84[EUR][1000 genomes]
rs889970	0.81[CEU][hapmap];0.83[MEX][hapmap];0.84[TSI][hapmap]
rs9300314	0.81[AFR][1000 genomes]
rs951498	0.86[LWK][hapmap];1.00[YRI][hapmap]
rs9634167	0.86[LWK][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs10849888	RNF34	cis	multi-tissue	Pritchard
rs10849888	B3GNT4	cis	cerebellum	SCAN
rs10849888	TAOK3	cis	parietal	SCAN
rs10849888	CLIP1	cis	parietal	SCAN
rs10849888	TMEM120B	cis	cerebellum	SCAN

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:121861400-121903600	Weak transcription	Right Atrium	heart
2	chr12:121868000-121893600	Weak transcription	Psoas Muscle	Psoas
3	chr12:121879200-121898600	Weak transcription	HSMMtube	muscle
4	chr12:121879200-121903400	Weak transcription	Hela-S3	cervix
5	chr12:121879200-121904000	Weak transcription	Small Intestine	intestine
6	chr12:121880000-121903600	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr12:121880000-121904000	Weak transcription	Aorta	Aorta
8	chr12:121880800-121902800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr12:121881800-121903400	Weak transcription	A549	lung
10	chr12:121883200-121892800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr12:121883200-121903600	Weak transcription	Brain Anterior Caudate	brain
12	chr12:121883400-121893000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr12:121883400-121893800	Weak transcription	Stomach Smooth Muscle	stomach
14	chr12:121883400-121903200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr12:121885200-121896200	Strong transcription	Fetal Stomach	stomach
16	chr12:121885600-121896200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr12:121885600-121903600	Weak transcription	Liver	Liver
18	chr12:121886200-121896200	Strong transcription	Dnd41	blood
19	chr12:121886400-121894200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr12:121887200-121902200	Weak transcription	Fetal Brain Male	brain
21	chr12:121888600-121895200	Enhancers	Placenta	Placenta
22	chr12:121889000-121892800	Weak transcription	Fetal Heart	heart
23	chr12:121889000-121893200	Enhancers	Primary monocytes fromperipheralblood	blood
24	chr12:121889400-121894400	Strong transcription	Thymus	Thymus
25	chr12:121889400-121902000	Weak transcription	K562	blood
26	chr12:121889800-121894800	Enhancers	Esophagus	oesophagus
27	chr12:121889800-121903400	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr12:121890200-121893400	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr12:121890200-121893800	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr12:121890200-121899200	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr12:121890200-121903400	Weak transcription	Fetal Lung	lung
32	chr12:121890400-121893000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr12:121890400-121902800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr12:121890400-121903400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
35	chr12:121890600-121894200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr12:121890600-121898200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr12:121890800-121892800	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr12:121890800-121893000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr12:121890800-121893000	Weak transcription	Ovary	ovary
40	chr12:121890800-121893200	Weak transcription	Fetal Brain Female	brain
41	chr12:121890800-121893400	Weak transcription	Fetal Thymus	thymus
42	chr12:121890800-121894600	Weak transcription	Primary T helper cells PMA-I stimulated	--
43	chr12:121890800-121896200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
44	chr12:121890800-121898600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr12:121890800-121902200	Weak transcription	HepG2	liver
46	chr12:121890800-121902200	Weak transcription	NHLF	lung
47	chr12:121890800-121902800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr12:121890800-121903400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr12:121890800-121903400	Weak transcription	Duodenum Mucosa	Duodenum
50	chr12:121890800-121903400	Weak transcription	Fetal Intestine Large	intestine

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