Variant report

Variant	rs6489811
Chromosome Location	chr12:121893626-121893627
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:121888904..121894167-chr12:121900825..121906643,6	K562	blood:
2	chr12:121888263..121891334-chr12:121893221..121895424,3	K562	blood:
3	chr12:121893194..121896214-chr12:121897767..121900813,4	K562	blood:

Extended variants
information (count: 25 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10444490	0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10744761	0.82[AMR][1000 genomes]
rs10744762	0.88[ASW][hapmap];0.93[CEU][hapmap];0.96[MEX][hapmap];0.90[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10774592	0.96[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10774593	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10849876	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10849883	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10849886	1.00[CEU][hapmap];0.91[CHB][hapmap];0.92[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.89[MKK][hapmap];0.93[TSI][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10849888	0.85[CEU][hapmap];0.87[MEX][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10849890	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10849892	0.83[ASN][1000 genomes]
rs11065566	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11065569	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12579582	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61955091	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7134248	0.93[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7296507	0.94[ASW][hapmap];0.96[CEU][hapmap];0.86[CHB][hapmap];0.95[CHD][hapmap];0.87[GIH][hapmap];0.86[JPT][hapmap];0.95[LWK][hapmap];0.96[MEX][hapmap];0.93[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7302836	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7961855	0.92[CEU][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7962128	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7962143	0.96[CEU][hapmap];0.85[CHB][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7976840	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7977709	0.90[CHD][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];0.82[ASN][1000 genomes]
rs7980819	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs889970	0.94[ASW][hapmap];0.96[CEU][hapmap];0.86[CHB][hapmap];0.97[CHD][hapmap];0.88[GIH][hapmap];0.86[JPT][hapmap];0.95[LWK][hapmap];0.96[MEX][hapmap];0.87[MKK][hapmap];0.93[TSI][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs6489811	CLIP1	cis	parietal	SCAN
rs6489811	RNF34	cis	multi-tissue	Pritchard
rs6489811	B3GNT4	cis	cerebellum	SCAN
rs6489811	TMEM120B	cis	cerebellum	SCAN

Chromatin state (count:105 , 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	chr12:121879200-121898600	Weak transcription	HSMMtube	muscle
3	chr12:121879200-121903400	Weak transcription	Hela-S3	cervix
4	chr12:121879200-121904000	Weak transcription	Small Intestine	intestine
5	chr12:121880000-121903600	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr12:121880000-121904000	Weak transcription	Aorta	Aorta
7	chr12:121880800-121902800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr12:121881800-121903400	Weak transcription	A549	lung
9	chr12:121883200-121903600	Weak transcription	Brain Anterior Caudate	brain
10	chr12:121883400-121893800	Weak transcription	Stomach Smooth Muscle	stomach
11	chr12:121883400-121903200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr12:121885200-121896200	Strong transcription	Fetal Stomach	stomach
13	chr12:121885600-121896200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr12:121885600-121903600	Weak transcription	Liver	Liver
15	chr12:121886200-121896200	Strong transcription	Dnd41	blood
16	chr12:121886400-121894200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr12:121887200-121902200	Weak transcription	Fetal Brain Male	brain
18	chr12:121888600-121895200	Enhancers	Placenta	Placenta
19	chr12:121889400-121894400	Strong transcription	Thymus	Thymus
20	chr12:121889400-121902000	Weak transcription	K562	blood
21	chr12:121889800-121894800	Enhancers	Esophagus	oesophagus
22	chr12:121889800-121903400	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr12:121890200-121893800	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr12:121890200-121899200	Weak transcription	Primary T helper cells fromperipheralblood	blood
25	chr12:121890200-121903400	Weak transcription	Fetal Lung	lung
26	chr12:121890400-121902800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr12:121890400-121903400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr12:121890600-121894200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr12:121890600-121898200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr12:121890800-121894600	Weak transcription	Primary T helper cells PMA-I stimulated	--
31	chr12:121890800-121896200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr12:121890800-121898600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr12:121890800-121902200	Weak transcription	HepG2	liver
34	chr12:121890800-121902200	Weak transcription	NHLF	lung
35	chr12:121890800-121902800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr12:121890800-121903400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr12:121890800-121903400	Weak transcription	Duodenum Mucosa	Duodenum
38	chr12:121890800-121903400	Weak transcription	Fetal Intestine Large	intestine
39	chr12:121890800-121903400	Weak transcription	HMEC	breast
40	chr12:121890800-121903400	Weak transcription	NHEK	skin
41	chr12:121890800-121903600	Weak transcription	NHDF-Ad	bronchial
42	chr12:121891000-121894600	Weak transcription	Left Ventricle	heart
43	chr12:121891000-121895000	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr12:121891000-121895200	Strong transcription	GM12878-XiMat	blood
45	chr12:121891000-121895400	Weak transcription	HUVEC	blood vessel
46	chr12:121891000-121899400	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr12:121891000-121899800	Weak transcription	Brain Germinal Matrix	brain
48	chr12:121891000-121902200	Weak transcription	Pancreas	Pancrea
49	chr12:121891000-121903200	Weak transcription	Primary hematopoietic stem cells	blood
50	chr12:121891000-121903200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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