Variant report

Variant	rs7139241
Chromosome Location	chr12:26211672-26211673
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10459081	0.85[CHB][hapmap];0.94[JPT][hapmap]
rs10771250	0.84[CHB][hapmap]
rs10771255	0.85[CHB][hapmap];0.94[JPT][hapmap]
rs10842651	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs10842655	0.81[ASN][1000 genomes]
rs10842658	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10842659	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11048363	0.84[CHB][hapmap]
rs12369462	0.81[ASN][1000 genomes]
rs1513124	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1874351	0.85[CHB][hapmap];0.94[JPT][hapmap]
rs1986802	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1994995	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs2251618	0.90[CHB][hapmap];0.86[CHD][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs2271483	0.86[ASN][1000 genomes]
rs2643927	0.95[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs2643930	0.87[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs2729631	0.89[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2729634	0.81[ASN][1000 genomes]
rs2729635	0.95[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs6487522	0.84[CHB][hapmap]
rs7132820	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7136804	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7137379	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7138742	0.82[CEU][hapmap];0.89[CHB][hapmap];0.83[CHD][hapmap];0.94[JPT][hapmap];0.82[MEX][hapmap]
rs7295585	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7299421	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7956992	0.89[CHB][hapmap];0.87[JPT][hapmap]
rs7963754	0.87[CHB][hapmap];0.86[JPT][hapmap]
rs7969486	0.95[CHB][hapmap];0.87[JPT][hapmap]
rs7979763	0.84[CHB][hapmap]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs7139241	FAR2	cis	parietal	SCAN
rs7139241	LRMP	cis	parietal	SCAN
rs7139241	BHLHE41	cis	parietal	SCAN
rs7139241	RASSF8	cis	parietal	SCAN

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:26192400-26228600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr12:26196400-26219800	Weak transcription	Fetal Kidney	kidney
3	chr12:26197200-26211800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr12:26197200-26228600	Weak transcription	Aorta	Aorta
5	chr12:26199200-26220200	Weak transcription	Brain Substantia Nigra	brain
6	chr12:26199400-26221600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr12:26200800-26229000	Weak transcription	Fetal Muscle Trunk	muscle
8	chr12:26201000-26220800	Weak transcription	Left Ventricle	heart
9	chr12:26201000-26223400	Weak transcription	Fetal Muscle Leg	muscle
10	chr12:26201200-26234600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr12:26201400-26221600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr12:26201600-26215400	Weak transcription	Psoas Muscle	Psoas
13	chr12:26201600-26236200	Weak transcription	Right Ventricle	heart
14	chr12:26202000-26211800	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr12:26205400-26215400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr12:26206000-26215200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr12:26206800-26211800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr12:26206800-26215000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr12:26206800-26229600	Weak transcription	Ovary	ovary
20	chr12:26206800-26229800	Weak transcription	Stomach Smooth Muscle	stomach
21	chr12:26207000-26215000	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr12:26207000-26218000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr12:26207000-26221400	Weak transcription	Fetal Stomach	stomach
24	chr12:26207200-26215000	Weak transcription	Rectal Smooth Muscle	rectum
25	chr12:26207200-26220400	Weak transcription	Brain Hippocampus Middle	brain
26	chr12:26207400-26223600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr12:26207600-26217400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr12:26207600-26221200	Weak transcription	Pancreas	Pancrea
29	chr12:26207800-26221400	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr12:26207800-26221400	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr12:26207800-26224000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr12:26207800-26224000	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr12:26208000-26221000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
34	chr12:26208200-26212000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr12:26208400-26215600	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr12:26208400-26234600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr12:26209000-26220400	Weak transcription	Lung	lung
38	chr12:26209600-26213800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr12:26209600-26215200	Weak transcription	HMEC	breast
40	chr12:26209600-26215400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr12:26209600-26215400	Weak transcription	NH-A	brain
42	chr12:26209600-26220200	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr12:26209600-26220600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr12:26209600-26224800	Weak transcription	Brain Anterior Caudate	brain
45	chr12:26209600-26230400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr12:26209800-26215000	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr12:26209800-26215000	Weak transcription	NHLF	lung
48	chr12:26209800-26215000	Weak transcription	Osteobl	bone
49	chr12:26209800-26215200	Weak transcription	HSMM	muscle
50	chr12:26209800-26215200	Weak transcription	HSMMtube	muscle

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