Variant report

Variant	rs2854342
Chromosome Location	chr13:48886282-48886283
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:48886217..48888440-chr13:48889572..48892484,2	K562	blood:
2	chr13:48876952..48879921-chr13:48882971..48886926,4	MCF-7	breast:
3	chr13:48875864..48881455-chr13:48881807..48887106,10	K562	blood:

Variant related genes	Relation type
ENSG00000231473	Chromatin interaction
ENSG00000139687	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs171988	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs171990	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17349061	1.00[ASN][1000 genomes]
rs174857	1.00[ASW][hapmap];1.00[CEU][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs198564	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs198568	1.00[CEU][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs198571	1.00[ASW][hapmap];1.00[CEU][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap];0.93[LWK][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs198574	0.87[ASW][hapmap];1.00[CEU][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap];0.83[LWK][hapmap];0.91[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs198575	1.00[CEU][hapmap];0.90[JPT][hapmap];0.91[YRI][hapmap];0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs198576	1.00[CEU][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs198577	1.00[CEU][hapmap];0.89[JPT][hapmap];0.95[YRI][hapmap];0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs198606	0.93[ASW][hapmap];1.00[CEU][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs198608	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs198609	1.00[CEU][hapmap];0.81[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs198610	1.00[CEU][hapmap];0.90[JPT][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs198614	1.00[ASW][hapmap];1.00[CEU][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap]
rs198622	1.00[CEU][hapmap];0.90[JPT][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs198623	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs198624	0.84[AFR][1000 genomes]
rs198627	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs198629	0.94[AFR][1000 genomes]
rs198630	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs198631	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2006125	0.97[ASN][1000 genomes]
rs2006126	0.97[ASN][1000 genomes]
rs2070752	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2515669	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2804094	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2804095	1.00[JPT][hapmap];0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2854348	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2854353	1.00[CEU][hapmap];0.90[JPT][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2854357	1.00[CEU][hapmap];0.90[JPT][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2854362	1.00[CEU][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3092888	0.90[JPT][hapmap]
rs3092899	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs3825419	0.88[CHB][hapmap];0.88[JPT][hapmap];0.91[ASN][1000 genomes]
rs398158	1.00[CEU][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs403390	1.00[CEU][hapmap];0.90[JPT][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs406098	0.93[ASW][hapmap];1.00[CEU][hapmap];0.84[CHD][hapmap];0.90[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4151434	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4151442	1.00[JPT][hapmap]
rs4151448	1.00[JPT][hapmap]
rs4151452	1.00[JPT][hapmap]
rs4151456	0.90[JPT][hapmap]
rs4151474	1.00[JPT][hapmap]
rs4151525	0.81[JPT][hapmap]
rs4151601	0.81[JPT][hapmap]
rs425834	1.00[CEU][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs427686	1.00[CEU][hapmap];0.90[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs449268	0.91[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap]
rs6561448	1.00[CEU][hapmap];0.90[JPT][hapmap];0.80[EUR][1000 genomes]
rs6561457	0.80[EUR][1000 genomes]
rs7324532	0.97[ASN][1000 genomes]
rs7325962	0.86[ASW][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.92[EUR][1000 genomes]
rs9316385	0.84[EUR][1000 genomes]
rs9316386	0.82[MEX][hapmap]
rs9332054	0.81[JPT][hapmap]
rs9332278	1.00[CEU][hapmap]

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:48878800-48890800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr13:48879000-48891000	Weak transcription	Esophagus	oesophagus
3	chr13:48879400-48890000	Weak transcription	Fetal Brain Male	brain
4	chr13:48879400-48890000	Weak transcription	Fetal Intestine Large	intestine
5	chr13:48879400-48894200	Weak transcription	A549	lung
6	chr13:48879600-48889400	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr13:48879800-48892400	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr13:48880000-48888000	Weak transcription	K562	blood
9	chr13:48880000-48889400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr13:48880000-48892000	Weak transcription	HSMMtube	muscle
11	chr13:48880200-48886800	Weak transcription	Fetal Heart	heart
12	chr13:48880200-48888000	Weak transcription	Fetal Lung	lung
13	chr13:48880200-48889200	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr13:48880200-48890600	Weak transcription	NHLF	lung
15	chr13:48880200-48891400	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr13:48880200-48892200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr13:48880200-48892200	Weak transcription	Fetal Kidney	kidney
18	chr13:48880200-48892200	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr13:48880200-48892600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr13:48880200-48892600	Weak transcription	NH-A	brain
21	chr13:48880200-48893800	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr13:48880200-48894400	Weak transcription	Brain Anterior Caudate	brain
23	chr13:48880200-48913200	Weak transcription	Aorta	Aorta
24	chr13:48880400-48889600	Weak transcription	Fetal Brain Female	brain
25	chr13:48880400-48890200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr13:48880400-48890400	Weak transcription	Gastric	stomach
27	chr13:48880400-48890400	Weak transcription	Lung	lung
28	chr13:48880400-48890800	Weak transcription	Duodenum Mucosa	Duodenum
29	chr13:48880400-48891000	Weak transcription	Fetal Muscle Trunk	muscle
30	chr13:48880400-48891200	Weak transcription	Placenta	Placenta
31	chr13:48880400-48892400	Weak transcription	HMEC	breast
32	chr13:48880400-48892600	Weak transcription	Primary hematopoietic stem cells	blood
33	chr13:48880600-48890200	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr13:48880600-48890200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr13:48880600-48890400	Weak transcription	Left Ventricle	heart
36	chr13:48880600-48890400	Weak transcription	Right Ventricle	heart
37	chr13:48880600-48891000	Weak transcription	Pancreas	Pancrea
38	chr13:48880600-48891000	Weak transcription	Stomach Smooth Muscle	stomach
39	chr13:48880600-48891800	Weak transcription	HUVEC	blood vessel
40	chr13:48880600-48892200	Weak transcription	Brain Hippocampus Middle	brain
41	chr13:48880600-48892200	Weak transcription	Rectal Smooth Muscle	rectum
42	chr13:48880600-48892400	Weak transcription	Ovary	ovary
43	chr13:48880600-48894600	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr13:48880600-48924600	Weak transcription	Psoas Muscle	Psoas
45	chr13:48880800-48887200	Strong transcription	Primary monocytes fromperipheralblood	blood
46	chr13:48880800-48887600	Strong transcription	Primary B cells from peripheral blood	blood
47	chr13:48880800-48889800	Strong transcription	Monocytes-CD14+_RO01746	blood
48	chr13:48880800-48890000	Weak transcription	Thymus	Thymus
49	chr13:48880800-48890200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr13:48880800-48890200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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