Variant report

Variant	rs610877
Chromosome Location	chr15:59103328-59103329
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11071398	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs11638244	0.85[YRI][hapmap]
rs11854073	0.96[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];0.80[MEX][hapmap];0.98[MKK][hapmap];0.89[TSI][hapmap];0.95[YRI][hapmap]
rs12899638	0.95[YRI][hapmap]
rs1427281	1.00[CHB][hapmap];0.84[CHD][hapmap];0.91[GIH][hapmap]
rs1427282	0.81[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.95[YRI][hapmap]
rs1648532	1.00[CHB][hapmap];0.86[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17190727	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2555356	1.00[CHB][hapmap];0.87[YRI][hapmap]
rs2555357	0.86[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2657125	0.95[YRI][hapmap]
rs28864995	0.92[CHB][hapmap];0.80[CHD][hapmap];0.91[GIH][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];0.95[YRI][hapmap]
rs347115	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs347117	0.83[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.92[TSI][hapmap];0.95[YRI][hapmap]
rs383902	0.83[ASW][hapmap];0.87[CEU][hapmap];0.92[CHB][hapmap];0.84[CHD][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];0.90[YRI][hapmap];0.81[EUR][1000 genomes]
rs387812	1.00[LWK][hapmap];0.83[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs421829	0.83[AFR][1000 genomes]
rs442495	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[YRI][hapmap];0.86[EUR][1000 genomes]
rs446126	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs452698	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs474875	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4774310	1.00[CHB][hapmap]
rs4775087	0.83[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];0.80[MEX][hapmap];0.98[MKK][hapmap];0.89[TSI][hapmap];0.95[YRI][hapmap]
rs4775094	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.98[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs507801	0.83[CHB][hapmap]
rs514049	0.83[GIH][hapmap]
rs593742	0.98[GIH][hapmap]
rs596379	0.84[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs605928	0.92[CHB][hapmap];0.84[CHD][hapmap];1.00[GIH][hapmap];0.82[MKK][hapmap]
rs618684	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6494029	1.00[LWK][hapmap];0.98[MKK][hapmap];0.95[YRI][hapmap]
rs6494036	0.83[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.89[GIH][hapmap]
rs653765	0.83[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];0.81[MKK][hapmap]
rs673813	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs714696	1.00[CHB][hapmap];0.94[YRI][hapmap]
rs7161889	0.83[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.96[GIH][hapmap];1.00[LWK][hapmap];0.80[MEX][hapmap];0.98[MKK][hapmap];0.89[TSI][hapmap];0.95[YRI][hapmap]
rs7183336	1.00[CHB][hapmap]
rs8043406	0.81[GIH][hapmap]
rs972801	0.92[CHB][hapmap];0.80[CHD][hapmap];0.89[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.95[YRI][hapmap]

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	esv34110	chr15:58949991-59381634	Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic 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	87 gene(s)	inside rSNPs	diseases
2	esv1843037	chr15:59005922-59115159	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
3	esv1826703	chr15:59005922-59213678	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer 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	44 gene(s)	inside rSNPs	diseases
4	esv1798487	chr15:59027139-59213678	Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
5	nsv428638	chr15:59032300-59126567	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
6	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs610877	ADAM10	cis	parietal	SCAN

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59064600-59145600	Weak transcription	Gastric	stomach
2	chr15:59065200-59117800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr15:59065800-59142800	Weak transcription	Aorta	Aorta
4	chr15:59067000-59157800	Weak transcription	Hela-S3	cervix
5	chr15:59067400-59111400	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr15:59067800-59105000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr15:59069400-59103600	Weak transcription	Brain Germinal Matrix	brain
8	chr15:59069600-59106000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr15:59069600-59119000	Weak transcription	Fetal Brain Male	brain
10	chr15:59069800-59121400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr15:59072000-59105600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr15:59075000-59139800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr15:59077800-59122000	Weak transcription	Brain Substantia Nigra	brain
14	chr15:59077800-59153600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr15:59086200-59125800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr15:59086400-59125800	Weak transcription	Right Ventricle	heart
17	chr15:59087200-59104600	Weak transcription	HMEC	breast
18	chr15:59088400-59119200	Weak transcription	Colonic Mucosa	Colon
19	chr15:59088600-59105400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr15:59090200-59156600	Weak transcription	Small Intestine	intestine
21	chr15:59090400-59105200	Weak transcription	Brain Cingulate Gyrus	brain
22	chr15:59090400-59121600	Weak transcription	Fetal Heart	heart
23	chr15:59094200-59122800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr15:59095200-59156800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr15:59095800-59103600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr15:59096200-59105200	Weak transcription	Osteobl	bone
27	chr15:59097000-59110400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr15:59100200-59105000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr15:59100200-59105200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr15:59100400-59122200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr15:59100400-59139800	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr15:59100600-59104600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr15:59100600-59105600	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr15:59101200-59106000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr15:59101800-59104000	Strong transcription	Primary T cells fromperipheralblood	blood
36	chr15:59101800-59106000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr15:59101800-59107600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr15:59101800-59112400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr15:59102000-59104000	Strong transcription	NHLF	lung
40	chr15:59102000-59104800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr15:59102000-59105800	Strong transcription	Primary T helper cells fromperipheralblood	blood
42	chr15:59102000-59108200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr15:59102000-59109200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr15:59102000-59126400	Weak transcription	Stomach Mucosa	stomach
45	chr15:59102200-59104000	Strong transcription	Fetal Brain Female	brain
46	chr15:59102400-59103800	Strong transcription	Colon Smooth Muscle	Colon
47	chr15:59102400-59103800	Genic enhancers	Duodenum Mucosa	Duodenum
48	chr15:59102400-59104000	Strong transcription	HUES48 Cell Line	embryonic stem cell
49	chr15:59102400-59104000	Strong transcription	Primary B cells from peripheral blood	blood
50	chr15:59102400-59104000	Strong transcription	Primary T cells from cord blood	blood

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