Variant report

Variant	rs728529
Chromosome Location	chr5:115791050-115791051
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10077506	0.86[CHB][hapmap];0.89[ASN][1000 genomes]
rs10077720	0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs17139805	0.93[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.92[ASN][1000 genomes]
rs17139820	0.90[CEU][hapmap];0.81[JPT][hapmap];1.00[LWK][hapmap];0.81[MKK][hapmap];0.95[TSI][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs17139825	0.86[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2303752	0.93[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs3733725	0.93[CHB][hapmap];0.89[CHD][hapmap];0.88[ASN][1000 genomes]
rs6861354	0.92[ASN][1000 genomes]
rs6861511	0.90[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.92[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs728529	MCC	cis	cerebellum	SCAN
rs728529	MCC	cis	parietal	SCAN
rs728529	CDO1	cis	cerebellum	SCAN

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:115774600-115811000	Weak transcription	Small Intestine	intestine
2	chr5:115782200-115798200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr5:115783600-115802200	Weak transcription	Colonic Mucosa	Colon
4	chr5:115783600-115802200	Weak transcription	Pancreas	Pancrea
5	chr5:115783600-115803400	Weak transcription	Esophagus	oesophagus
6	chr5:115783600-115813000	Weak transcription	Spleen	Spleen
7	chr5:115783600-115813200	Weak transcription	Gastric	stomach
8	chr5:115783600-115829600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr5:115783800-115803200	Weak transcription	Liver	Liver
10	chr5:115784000-115791200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr5:115784200-115796800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr5:115784200-115800000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr5:115785200-115800200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr5:115787800-115791600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr5:115788000-115813200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr5:115788400-115791800	Enhancers	Fetal Stomach	stomach
17	chr5:115788400-115792000	Genic enhancers	HUES64 Cell Line	embryonic stem cell
18	chr5:115788600-115791400	Enhancers	HSMM	muscle
19	chr5:115788600-115793800	Genic enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr5:115788800-115791400	Enhancers	HSMMtube	muscle
21	chr5:115789000-115791200	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr5:115789000-115791600	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr5:115789000-115793800	Strong transcription	H9 Cell Line	embryonic stem cell
24	chr5:115789000-115795600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
25	chr5:115789000-115797400	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr5:115789000-115800200	Weak transcription	Psoas Muscle	Psoas
27	chr5:115789200-115791800	Genic enhancers	Cortex derived primary cultured neurospheres	brain
28	chr5:115789200-115796000	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr5:115789400-115795200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr5:115789600-115791400	Enhancers	Primary hematopoietic stem cells short term culture	blood
31	chr5:115789600-115792000	Enhancers	Primary hematopoietic stem cells	blood
32	chr5:115789600-115792400	Enhancers	Rectal Smooth Muscle	rectum
33	chr5:115789600-115795400	Strong transcription	H1 Cell Line	embryonic stem cell
34	chr5:115789600-115812600	Strong transcription	Fetal Intestine Large	intestine
35	chr5:115789800-115791200	Enhancers	Monocytes-CD14+_RO01746	blood
36	chr5:115789800-115791200	Flanking Active TSS	NH-A	brain
37	chr5:115789800-115791400	Enhancers	Primary T cells from cord blood	blood
38	chr5:115789800-115791600	Enhancers	Primary monocytes fromperipheralblood	blood
39	chr5:115789800-115803200	Weak transcription	Lung	lung
40	chr5:115790000-115796800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr5:115790000-115800200	Weak transcription	Fetal Intestine Small	intestine
42	chr5:115790200-115791600	Enhancers	Right Ventricle	heart
43	chr5:115790200-115795600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr5:115790400-115791400	Enhancers	Brain Cingulate Gyrus	brain
45	chr5:115790400-115791800	Weak transcription	Fetal Muscle Trunk	muscle
46	chr5:115790400-115792200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr5:115790400-115803200	Weak transcription	Aorta	Aorta
48	chr5:115790400-115812400	Weak transcription	HepG2	liver
49	chr5:115790600-115791200	Enhancers	Osteobl	bone
50	chr5:115790600-115791400	Enhancers	Fetal Kidney	kidney

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