Variant report

Variant	rs12507537
Chromosome Location	chr4:99536770-99536771
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10428298	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11097625	0.92[EUR][1000 genomes]
rs11097626	0.92[EUR][1000 genomes]
rs11937119	0.92[EUR][1000 genomes]
rs11938081	0.85[EUR][1000 genomes]
rs11941870	0.92[EUR][1000 genomes]
rs11941880	0.92[EUR][1000 genomes]
rs11946198	0.92[EUR][1000 genomes]
rs12501391	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12504979	0.84[ASN][1000 genomes]
rs12509046	0.96[ASN][1000 genomes]
rs12509170	0.84[ASN][1000 genomes]
rs12512885	0.91[EUR][1000 genomes]
rs28531755	0.98[ASN][1000 genomes]
rs28711692	0.93[ASN][1000 genomes]
rs3941	0.84[EUR][1000 genomes]
rs4699356	0.92[EUR][1000 genomes]
rs4699660	0.98[ASN][1000 genomes]
rs4699661	0.98[ASN][1000 genomes]
rs4699662	0.99[ASN][1000 genomes]
rs6532752	0.92[EUR][1000 genomes]
rs6532753	0.82[EUR][1000 genomes]
rs6819238	0.91[EUR][1000 genomes]
rs6832517	0.87[EUR][1000 genomes]
rs6846265	0.85[ASN][1000 genomes]
rs6848644	0.87[ASN][1000 genomes]
rs6852645	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7682381	0.85[EUR][1000 genomes]
rs7700024	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7700032	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9684705	0.89[EUR][1000 genomes]
rs9686007	0.90[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12507537	TSPAN5	cis	Muscle Skeletal	GTEx
rs12507537	RP11-1299A16.3	cis	Muscle Skeletal	GTEx

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99523000-99545000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:99527200-99541000	Weak transcription	NHLF	lung
3	chr4:99529200-99537800	Enhancers	Brain Inferior Temporal Lobe	brain
4	chr4:99529400-99539800	Enhancers	Brain Hippocampus Middle	brain
5	chr4:99529600-99542400	Enhancers	Brain Cingulate Gyrus	brain
6	chr4:99529600-99543200	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr4:99529800-99538600	Weak transcription	Lung	lung
8	chr4:99530000-99540600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr4:99530400-99537400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr4:99530400-99538400	Weak transcription	HUVEC	blood vessel
11	chr4:99530800-99537400	Enhancers	Muscle Satellite Cultured Cells	--
12	chr4:99531000-99538000	Enhancers	NH-A	brain
13	chr4:99531000-99538600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr4:99531000-99544200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr4:99531200-99536800	Enhancers	Fetal Heart	heart
16	chr4:99531200-99541400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr4:99531400-99538800	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr4:99532000-99538600	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr4:99532400-99538600	Weak transcription	Gastric	stomach
20	chr4:99532400-99538800	Weak transcription	Right Ventricle	heart
21	chr4:99532600-99545400	Weak transcription	HMEC	breast
22	chr4:99533600-99538600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr4:99534000-99537400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr4:99534000-99538600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr4:99534000-99538600	Weak transcription	Esophagus	oesophagus
26	chr4:99534000-99541400	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr4:99534200-99537000	Weak transcription	Spleen	Spleen
28	chr4:99534200-99538600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr4:99534200-99538600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr4:99534200-99538600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr4:99534200-99541400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr4:99534400-99541200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr4:99534400-99543200	Weak transcription	Thymus	Thymus
34	chr4:99534600-99538600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr4:99534600-99538600	Weak transcription	Fetal Lung	lung
36	chr4:99534600-99541000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr4:99534800-99538800	Weak transcription	Brain Germinal Matrix	brain
38	chr4:99535000-99538800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr4:99535000-99541400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr4:99535000-99541600	Enhancers	Ovary	ovary
41	chr4:99535200-99538600	Weak transcription	Fetal Thymus	thymus
42	chr4:99535200-99538600	Weak transcription	HSMMtube	muscle
43	chr4:99535200-99541200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr4:99535400-99536800	Enhancers	Fetal Muscle Trunk	muscle
45	chr4:99535400-99539200	Enhancers	Fetal Muscle Leg	muscle
46	chr4:99535400-99540000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr4:99535400-99541000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr4:99535400-99544200	Weak transcription	NHEK	skin
49	chr4:99535600-99538400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr4:99535600-99538400	Weak transcription	Colon Smooth Muscle	Colon

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