Variant report

Variant	rs4408870
Chromosome Location	chr3:133870967-133870968
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:133869963..133871897-chr3:133873500..133875119,2	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs12493731	0.90[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs4234422	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4234423	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4234424	0.85[CEU][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4234426	0.85[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4241371	1.00[JPT][hapmap]
rs4447762	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4470517	0.89[ASW][hapmap];0.85[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4577436	0.90[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.81[TSI][hapmap]
rs4682655	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682657	1.00[JPT][hapmap]
rs4682665	0.81[CEU][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682672	0.84[AMR][1000 genomes]
rs4854617	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4854618	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4854619	0.85[CEU][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4854813	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55688777	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56104814	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56205980	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62271183	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6439459	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6439467	0.81[EUR][1000 genomes]
rs6439471	0.83[AMR][1000 genomes]
rs6764932	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6779423	1.00[JPT][hapmap];0.84[AMR][1000 genomes]
rs6783989	0.81[EUR][1000 genomes]
rs6787345	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6795532	0.85[CEU][hapmap];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6795658	0.89[ASW][hapmap];0.85[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6799962	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71807032	0.93[AMR][1000 genomes]
rs7431604	0.83[CEU][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7433368	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7611104	0.89[ASW][hapmap];0.85[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7627059	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7633386	0.89[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7634265	0.85[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9289461	0.85[CEU][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812346	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9843401	0.85[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9862959	1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9870797	0.90[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4408870	IL20RB	cis	parietal	SCAN
rs4408870	EPHB1	cis	parietal	SCAN
rs4408870	PIK3CB	cis	parietal	SCAN

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133842000-133872600	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr3:133842800-133872000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr3:133843000-133871200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr3:133843000-133872600	Weak transcription	Gastric	stomach
5	chr3:133848600-133872600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr3:133853600-133871000	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr3:133854400-133872400	Weak transcription	NHEK	skin
8	chr3:133855400-133871000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr3:133856400-133872600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr3:133858000-133871800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr3:133859400-133871200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr3:133859400-133872600	Weak transcription	Aorta	Aorta
13	chr3:133862600-133873600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr3:133862600-133873600	Weak transcription	Fetal Heart	heart
15	chr3:133862800-133872600	Weak transcription	NH-A	brain
16	chr3:133862800-133876800	Weak transcription	Small Intestine	intestine
17	chr3:133863000-133872400	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr3:133863000-133872400	Weak transcription	Primary T helper cells PMA-I stimulated	--
19	chr3:133863000-133876800	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr3:133863000-133876800	Weak transcription	Brain Angular Gyrus	brain
21	chr3:133863000-133902200	Weak transcription	GM12878-XiMat	blood
22	chr3:133863200-133871200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr3:133863200-133872200	Weak transcription	HepG2	liver
24	chr3:133863200-133872800	Weak transcription	NHLF	lung
25	chr3:133863200-133877000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr3:133863200-133877400	Weak transcription	Psoas Muscle	Psoas
27	chr3:133863600-133873000	Weak transcription	Brain Germinal Matrix	brain
28	chr3:133863800-133871000	Weak transcription	Ovary	ovary
29	chr3:133863800-133871800	Weak transcription	Primary B cells from peripheral blood	blood
30	chr3:133863800-133872600	Weak transcription	Fetal Intestine Small	intestine
31	chr3:133864000-133871800	Weak transcription	Adipose Nuclei	Adipose
32	chr3:133864000-133873200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr3:133864000-133881000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr3:133864200-133872600	Weak transcription	Spleen	Spleen
35	chr3:133864200-133899800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
36	chr3:133864600-133892400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr3:133864800-133876800	Weak transcription	Brain Substantia Nigra	brain
38	chr3:133865000-133872400	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr3:133865200-133871000	Weak transcription	Primary hematopoietic stem cells	blood
40	chr3:133865200-133872600	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr3:133865200-133872600	Weak transcription	HUVEC	blood vessel
42	chr3:133865200-133873200	Weak transcription	Fetal Brain Male	brain
43	chr3:133865400-133872600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr3:133865400-133872600	Weak transcription	Fetal Thymus	thymus
45	chr3:133866200-133872600	Weak transcription	Pancreas	Pancrea
46	chr3:133866200-133898600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr3:133866600-133872600	Weak transcription	Esophagus	oesophagus
48	chr3:133866600-133872600	Weak transcription	Left Ventricle	heart
49	chr3:133866800-133871000	Weak transcription	Stomach Smooth Muscle	stomach
50	chr3:133867000-133872600	Weak transcription	Brain Hippocampus Middle	brain

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