Variant report

Variant	rs6821328
Chromosome Location	chr4:54217499-54217500
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:54216475..54218028-chr4:54241567..54243477,2	K562	blood:
2	chr4:54215552..54217782-chr4:54219355..54221752,2	K562	blood:
3	chr4:54212699..54214471-chr4:54216075..54218598,2	MCF-7	breast:

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11133248	0.95[CHB][hapmap];0.89[CHD][hapmap];0.95[JPT][hapmap]
rs11133273	0.84[ASN][1000 genomes]
rs11724781	0.84[CEU][hapmap];0.85[CHB][hapmap];0.82[JPT][hapmap];0.80[EUR][1000 genomes]
rs11935144	0.84[ASW][hapmap]
rs13146499	0.86[CHB][hapmap]
rs17654608	0.84[CEU][hapmap];0.95[CHB][hapmap];0.89[CHD][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap]
rs2412401	0.95[CHB][hapmap];0.89[CHD][hapmap];0.95[JPT][hapmap]
rs4571396	0.88[CEU][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4864737	0.86[CHB][hapmap];0.86[CHD][hapmap];0.84[JPT][hapmap]
rs55655046	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6554098	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6813560	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6821471	0.92[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap];0.83[MKK][hapmap];0.84[TSI][hapmap];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6822933	0.86[CHB][hapmap];0.84[JPT][hapmap]
rs6827392	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs6828559	0.81[LWK][hapmap]
rs6836800	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap]
rs6837934	0.84[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap]
rs6857744	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs751266	0.88[CEU][hapmap];0.91[CHB][hapmap];0.86[CHD][hapmap];0.82[GIH][hapmap];0.94[JPT][hapmap];0.91[MEX][hapmap];0.88[TSI][hapmap]
rs7672997	0.86[CHB][hapmap];0.86[CHD][hapmap];0.84[JPT][hapmap]
rs7675342	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6821328	MICALCL	trans	cerebellum	SCAN

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54170600-54230600	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr4:54188200-54218200	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr4:54188200-54231200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr4:54201200-54220000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr4:54202200-54226000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr4:54206600-54220200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr4:54210400-54225600	Weak transcription	Small Intestine	intestine
8	chr4:54211400-54219200	Weak transcription	Fetal Intestine Small	intestine
9	chr4:54211600-54219600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
10	chr4:54211600-54220200	Weak transcription	Fetal Stomach	stomach
11	chr4:54211800-54217800	Weak transcription	Primary hematopoietic stem cells	blood
12	chr4:54212000-54220600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr4:54212000-54227200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr4:54212200-54220800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr4:54212400-54217800	Weak transcription	Stomach Smooth Muscle	stomach
16	chr4:54212600-54219200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr4:54212800-54219600	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr4:54213200-54220200	Strong transcription	Primary monocytes fromperipheralblood	blood
19	chr4:54213600-54228600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr4:54213800-54218600	Weak transcription	Fetal Muscle Trunk	muscle
21	chr4:54213800-54230400	Weak transcription	Fetal Kidney	kidney
22	chr4:54214000-54218600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr4:54214000-54218800	Weak transcription	Adipose Nuclei	Adipose
24	chr4:54214000-54219200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr4:54214000-54221800	Weak transcription	Ovary	ovary
26	chr4:54214000-54230800	Weak transcription	Aorta	Aorta
27	chr4:54214000-54231200	Weak transcription	Lung	lung
28	chr4:54214200-54218200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr4:54214200-54218400	Weak transcription	Primary B cells from cord blood	blood
30	chr4:54214200-54218600	Weak transcription	Fetal Muscle Leg	muscle
31	chr4:54214200-54218800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr4:54214200-54218800	Weak transcription	Gastric	stomach
33	chr4:54214200-54218800	Weak transcription	Left Ventricle	heart
34	chr4:54214200-54218800	Weak transcription	NHLF	lung
35	chr4:54214200-54219400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr4:54214200-54219400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr4:54214200-54220200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr4:54214200-54221800	Weak transcription	Pancreas	Pancrea
39	chr4:54214200-54221800	Weak transcription	Psoas Muscle	Psoas
40	chr4:54214200-54224000	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr4:54214200-54228200	Weak transcription	Esophagus	oesophagus
42	chr4:54214200-54228200	Weak transcription	Fetal Brain Female	brain
43	chr4:54214200-54228200	Weak transcription	NH-A	brain
44	chr4:54214200-54228800	Weak transcription	Colon Smooth Muscle	Colon
45	chr4:54214200-54229000	Weak transcription	HUVEC	blood vessel
46	chr4:54214200-54230000	Weak transcription	Fetal Heart	heart
47	chr4:54214200-54230000	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr4:54214200-54230400	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr4:54214200-54230800	Weak transcription	Brain Angular Gyrus	brain
50	chr4:54214200-54230800	Weak transcription	Brain Substantia Nigra	brain

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