Variant report

Variant	rs3742987
Chromosome Location	chr15:43016547-43016548
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:43010972..43017152-chr15:43019499..43025146,7	MCF-7	breast:
2	chr15:43014717..43017348-chr15:43028002..43029875,2	MCF-7	breast:
3	chr15:43014319..43018768-chr15:43027782..43030873,5	MCF-7	breast:

No.	miRNA target gene	miRNA name	Chromosome Location	mirBase accession
1	CDAN1	hsa-miR-34a-5p	chr15:43016541-43016566

Variant related genes	Relation type
ENSG00000140326	Chromatin interaction
CDAN1	miRNA target site

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10400824	0.83[EUR][1000 genomes]
rs11070374	1.00[YRI][hapmap]
rs1197548	0.80[EUR][1000 genomes]
rs1197549	0.80[EUR][1000 genomes]
rs12102055	0.84[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12594483	0.97[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs12594855	0.94[CHB][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs12905592	0.93[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12906497	0.89[CEU][hapmap];0.85[CHB][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12907826	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12912064	0.90[EUR][1000 genomes]
rs12917018	0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12917189	0.84[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16957020	0.83[EUR][1000 genomes]
rs16957091	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16957104	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1705356	0.89[GIH][hapmap];0.93[MEX][hapmap]
rs1915241	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1995939	0.84[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2136900	0.90[EUR][1000 genomes]
rs2136901	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2280048	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2305084	0.89[CEU][hapmap];0.85[MEX][hapmap];0.89[TSI][hapmap];0.94[EUR][1000 genomes]
rs2305085	0.81[EUR][1000 genomes]
rs2412740	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2412741	0.83[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28479391	0.87[ASN][1000 genomes]
rs28549876	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28562951	0.90[EUR][1000 genomes]
rs28798437	0.83[EUR][1000 genomes]
rs28811114	0.82[EUR][1000 genomes]
rs28823029	0.82[EUR][1000 genomes]
rs3099758	0.91[GIH][hapmap];0.93[MEX][hapmap];0.80[EUR][1000 genomes]
rs3199486	0.84[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34191150	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35616173	0.93[AFR][1000 genomes];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35738819	0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs3742988	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4265781	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4923950	0.89[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs4924690	0.89[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4924691	0.83[EUR][1000 genomes]
rs4994112	0.95[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];0.85[MEX][hapmap];1.00[MKK][hapmap]
rs623271	0.89[GIH][hapmap];0.85[MEX][hapmap];0.80[EUR][1000 genomes]
rs6493059	0.85[MEX][hapmap];0.80[TSI][hapmap];0.83[EUR][1000 genomes]
rs6493060	1.00[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];0.85[MEX][hapmap];1.00[YRI][hapmap];0.93[ASN][1000 genomes]
rs6493061	1.00[CHB][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];0.88[JPT][hapmap];0.85[MEX][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6493062	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6493063	0.94[EUR][1000 genomes]
rs6493066	0.83[EUR][1000 genomes]
rs6493067	1.00[YRI][hapmap]
rs6493068	1.00[YRI][hapmap]
rs66681258	0.83[EUR][1000 genomes]
rs67391479	0.88[EUR][1000 genomes]
rs7163030	0.93[GIH][hapmap];0.85[MEX][hapmap];0.89[TSI][hapmap];0.87[EUR][1000 genomes]
rs7166373	0.95[CHB][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs7166632	0.84[EUR][1000 genomes]
rs7166775	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7167392	0.89[CEU][hapmap];0.89[TSI][hapmap];0.94[EUR][1000 genomes]
rs7167802	1.00[YRI][hapmap]
rs7168835	1.00[YRI][hapmap]
rs7169009	0.84[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7169202	1.00[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7174041	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7175582	0.81[TSI][hapmap];0.91[EUR][1000 genomes]
rs7182141	0.90[EUR][1000 genomes]
rs7182479	0.80[EUR][1000 genomes]
rs7182753	1.00[YRI][hapmap]
rs731984	0.84[CEU][hapmap];0.95[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];1.00[MKK][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8026233	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8027427	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8030587	1.00[CHB][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];0.82[JPT][hapmap];0.85[MEX][hapmap];0.87[ASN][1000 genomes]
rs8034447	0.84[CEU][hapmap];0.95[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];0.85[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8034664	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8039765	0.82[GIH][hapmap]
rs8043472	0.89[GIH][hapmap];0.90[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs9269	0.85[MEX][hapmap];0.83[TSI][hapmap];0.92[EUR][1000 genomes]
rs9783683	1.00[YRI][hapmap]
rs9783713	0.91[EUR][1000 genomes]
rs9919994	0.84[CEU][hapmap];0.87[GIH][hapmap];0.90[EUR][1000 genomes]
rs9920163	0.82[EUR][1000 genomes]
rs9920182	0.94[JPT][hapmap];0.85[MEX][hapmap]
rs9944248	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv528725	chr15:42755555-43104406	Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv427959	chr15:42931181-43207353	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv457122	chr15:42948862-43062548	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv569238	chr15:42948862-43062548	Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv517553	chr15:42970899-43023482	Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv977054	chr15:43015821-43171355	Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42977000-43016600	Weak transcription	Hela-S3	cervix
2	chr15:42986000-43018400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr15:43000800-43018600	Weak transcription	A549	lung
4	chr15:43007200-43026800	Strong transcription	Fetal Stomach	stomach
5	chr15:43007800-43020800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr15:43008000-43027600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
7	chr15:43008200-43027600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr15:43008200-43027800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr15:43008400-43020000	Strong transcription	Fetal Muscle Trunk	muscle
10	chr15:43008400-43020400	Strong transcription	Brain Substantia Nigra	brain
11	chr15:43008600-43027400	Strong transcription	Fetal Brain Female	brain
12	chr15:43008800-43017200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr15:43008800-43018400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr15:43008800-43019800	Strong transcription	Brain Inferior Temporal Lobe	brain
15	chr15:43008800-43026600	Strong transcription	Skeletal Muscle Male	skeletal muscle
16	chr15:43008800-43027200	Strong transcription	Brain Germinal Matrix	brain
17	chr15:43008800-43027200	Strong transcription	Lung	lung
18	chr15:43008800-43027400	Strong transcription	Adipose Nuclei	Adipose
19	chr15:43008800-43027800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr15:43009000-43027400	Strong transcription	Cortex derived primary cultured neurospheres	brain
21	chr15:43009000-43027600	Strong transcription	Duodenum Smooth Muscle	Duodenum
22	chr15:43009000-43027800	Strong transcription	Fetal Intestine Large	intestine
23	chr15:43009200-43027800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr15:43009400-43017400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr15:43009400-43018200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr15:43009600-43026600	Strong transcription	Spleen	Spleen
27	chr15:43009600-43027400	Strong transcription	Fetal Intestine Small	intestine
28	chr15:43009600-43027800	Strong transcription	Left Ventricle	heart
29	chr15:43009800-43018600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr15:43009800-43020800	Weak transcription	Stomach Mucosa	stomach
31	chr15:43010000-43017200	Strong transcription	Colon Smooth Muscle	Colon
32	chr15:43010000-43020200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
33	chr15:43010000-43027200	Strong transcription	Skeletal Muscle Female	skeletal muscle
34	chr15:43010000-43027400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr15:43010000-43027600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr15:43010000-43027600	Strong transcription	Brain Anterior Caudate	brain
37	chr15:43010000-43027600	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr15:43010200-43027400	Strong transcription	Primary T cells from cord blood	blood
39	chr15:43010200-43027600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr15:43010200-43027600	Strong transcription	Ovary	ovary
41	chr15:43010200-43027800	Strong transcription	Gastric	stomach
42	chr15:43010400-43026800	Strong transcription	Stomach Smooth Muscle	stomach
43	chr15:43010400-43026800	Strong transcription	Thymus	Thymus
44	chr15:43010400-43027600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr15:43010400-43027800	Strong transcription	Placenta	Placenta
46	chr15:43010800-43020600	Strong transcription	Fetal Lung	lung
47	chr15:43011000-43026600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr15:43011000-43026800	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr15:43011000-43027200	Strong transcription	Duodenum Mucosa	Duodenum
50	chr15:43011200-43020400	Strong transcription	Primary B cells from cord blood	blood

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