Variant report

Variant	rs1505286
Chromosome Location	chr3:24418957-24418958
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:24349650..24351636-chr3:24417726..24419434,2	MCF-7	breast:
2	chr3:24364862..24367496-chr3:24418521..24420748,2	K562	blood:
3	chr3:24416630..24419472-chr3:24433631..24435823,2	K562	blood:
4	chr3:24412210..24416414-chr3:24416681..24419144,4	MCF-7	breast:
5	chr3:24414427..24416637-chr3:24418251..24421032,2	MCF-7	breast:
6	chr3:24408638..24410180-chr3:24416324..24419253,2	K562	blood:
7	chr3:24417452..24419751-chr3:24421760..24423722,3	K562	blood:
8	chr3:24417175..24419613-chr3:24421203..24423602,2	K562	blood:

No data

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11129150	0.94[EUR][1000 genomes]
rs11129152	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11918018	0.84[ASN][1000 genomes]
rs12495379	0.96[CEU][hapmap];0.91[CHD][hapmap];0.89[GIH][hapmap];0.82[JPT][hapmap];0.84[MEX][hapmap];0.84[TSI][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13065876	0.81[ASN][1000 genomes]
rs13086388	0.84[ASN][1000 genomes]
rs1505287	0.91[CHB][hapmap];0.98[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.80[MEX][hapmap];0.94[ASN][1000 genomes]
rs1505289	0.85[CEU][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];0.92[MEX][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17014597	0.95[ASN][1000 genomes]
rs17014605	0.96[CEU][hapmap];0.82[JPT][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2135147	0.96[CEU][hapmap];0.95[EUR][1000 genomes]
rs28380451	0.81[ASN][1000 genomes]
rs35340172	0.82[ASN][1000 genomes]
rs4276128	0.92[EUR][1000 genomes]
rs4300958	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4309672	0.84[ASN][1000 genomes]
rs4602332	0.81[ASN][1000 genomes]
rs4630886	0.80[CHB][hapmap];0.84[ASN][1000 genomes]
rs4858608	0.88[CEU][hapmap];0.83[CHD][hapmap];0.89[GIH][hapmap];0.82[JPT][hapmap];0.84[TSI][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4858610	0.87[CHD][hapmap];0.84[ASN][1000 genomes]
rs6550865	0.81[CHD][hapmap]
rs6769978	0.84[ASN][1000 genomes]
rs6771995	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7630858	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9310739	0.94[EUR][1000 genomes]
rs9310740	0.96[CEU][hapmap];0.91[CHD][hapmap];0.89[GIH][hapmap];0.82[JPT][hapmap];0.88[MEX][hapmap];0.84[TSI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9816509	0.81[CEU][hapmap];0.82[JPT][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9826887	0.96[EUR][1000 genomes]
rs9851523	0.96[CEU][hapmap];0.94[EUR][1000 genomes]
rs9852824	0.96[CEU][hapmap];0.89[GIH][hapmap];0.80[MEX][hapmap];0.84[TSI][hapmap];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834640	chr3:24339779-24493605	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1505286	NKIRAS1	cis	cerebellum	SCAN

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24394000-24431400	Weak transcription	Gastric	stomach
2	chr3:24412400-24421000	Weak transcription	Right Atrium	heart
3	chr3:24412400-24428400	Weak transcription	NHDF-Ad	bronchial
4	chr3:24413400-24420200	Enhancers	Fetal Intestine Large	intestine
5	chr3:24414200-24423000	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr3:24415200-24419600	Enhancers	HepG2	liver
7	chr3:24415200-24421200	Weak transcription	HMEC	breast
8	chr3:24416000-24420200	Enhancers	Colon Smooth Muscle	Colon
9	chr3:24416400-24419200	Enhancers	A549	lung
10	chr3:24416600-24421600	Weak transcription	Fetal Kidney	kidney
11	chr3:24417200-24420200	Enhancers	Liver	Liver
12	chr3:24417600-24419000	Enhancers	Psoas Muscle	Psoas
13	chr3:24417600-24420600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr3:24417800-24419000	Enhancers	Left Ventricle	heart
15	chr3:24417800-24420000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr3:24417800-24422000	Enhancers	K562	blood
17	chr3:24418000-24419000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr3:24418000-24419000	Enhancers	Pancreas	Pancrea
19	chr3:24418000-24419400	Weak transcription	Rectal Smooth Muscle	rectum
20	chr3:24418000-24429200	Weak transcription	Right Ventricle	heart
21	chr3:24418000-24429800	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr3:24418000-24430000	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr3:24418200-24419200	Weak transcription	Fetal Intestine Small	intestine
24	chr3:24418200-24421400	Weak transcription	Stomach Mucosa	stomach
25	chr3:24418200-24429200	Weak transcription	Stomach Smooth Muscle	stomach
26	chr3:24418200-24429800	Weak transcription	Fetal Lung	lung
27	chr3:24418600-24419000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:24418600-24419400	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr3:24418600-24419600	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr3:24418800-24419400	Weak transcription	Aorta	Aorta
31	chr3:24418800-24419600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr3:24418800-24419600	Enhancers	Primary neutrophils fromperipheralblood	blood

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