Variant report

Variant	rs12405774
Chromosome Location	chr1:59191545-59191546
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:59191433..59194290-chr1:59244978..59247044,2	K562	blood:
2	chr1:59190245..59193949-chr1:59247631..59250886,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000234807	Chromatin interaction
ENSG00000177606	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs10889115	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11583201	0.85[CEU][hapmap];0.84[CHB][hapmap];0.90[CHD][hapmap];0.85[GIH][hapmap];0.85[JPT][hapmap];0.85[MEX][hapmap];0.97[TSI][hapmap];0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12118682	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12143680	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12409869	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12747063	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17117956	0.92[JPT][hapmap]
rs17118103	0.92[JPT][hapmap]
rs17118106	0.92[JPT][hapmap];0.92[MEX][hapmap]
rs232777	0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232780	0.92[JPT][hapmap]
rs232782	0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232786	0.90[JPT][hapmap]
rs232794	0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232795	1.00[JPT][hapmap]
rs232853	0.92[JPT][hapmap]
rs232855	0.85[CEU][hapmap]
rs232860	0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232871	0.91[JPT][hapmap]
rs232874	0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232876	0.92[JPT][hapmap]
rs232882	0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232885	0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232892	0.82[GIH][hapmap];0.92[JPT][hapmap]
rs232894	0.90[JPT][hapmap]
rs232895	0.91[JPT][hapmap]
rs34882065	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6587835	0.82[GIH][hapmap];0.92[JPT][hapmap]
rs7524931	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7528508	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7548025	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs12405774	INADL	cis	parietal	SCAN
rs12405774	PARS2	cis	parietal	SCAN
rs12405774	MYSM1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:59180600-59192800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:59183400-59197600	Weak transcription	Aorta	Aorta
3	chr1:59183600-59193000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr1:59184000-59192600	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr1:59184600-59192200	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr1:59184600-59193000	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr1:59185200-59192400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr1:59185800-59193200	Weak transcription	Left Ventricle	heart
9	chr1:59185800-59193200	Weak transcription	Spleen	Spleen
10	chr1:59187200-59192400	Weak transcription	NH-A	brain
11	chr1:59187600-59191800	Weak transcription	HUVEC	blood vessel
12	chr1:59187600-59192400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr1:59187600-59192400	Weak transcription	NHDF-Ad	bronchial
14	chr1:59187600-59192400	Weak transcription	NHEK	skin
15	chr1:59187600-59192600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr1:59188400-59192400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr1:59188600-59193400	Enhancers	GM12878-XiMat	blood
18	chr1:59188800-59191600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr1:59188800-59192600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr1:59189000-59191600	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr1:59189000-59191800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr1:59189000-59192400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr1:59189000-59192400	Weak transcription	Osteobl	bone
24	chr1:59189000-59192600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr1:59189000-59193000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr1:59189000-59193000	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr1:59189000-59193000	Weak transcription	NHLF	lung
28	chr1:59189800-59194200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr1:59189800-59194400	Enhancers	Breast Myoepithelial Primary Cells	Breast
30	chr1:59190200-59194400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr1:59190400-59191600	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr1:59190600-59192400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr1:59190800-59192400	Weak transcription	Primary B cells from peripheral blood	blood
34	chr1:59191200-59192400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr1:59191200-59192400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr1:59191200-59194400	Enhancers	HMEC	breast

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