Variant report

Variant	rs4775087
Chromosome Location	chr15:58974904-58974905
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:58974278..58977039-chr15:58978595..58981232,2	K562	blood:

Variant related genes	Relation type
ENSG00000182625	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10152558	0.83[CHB][hapmap]
rs11071398	0.81[CEU][hapmap];0.95[YRI][hapmap]
rs11638244	0.93[YRI][hapmap];0.81[AFR][1000 genomes]
rs11854073	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12439457	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12899638	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs12911832	0.81[ASN][1000 genomes]
rs12911961	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs12912003	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12912699	0.85[AFR][1000 genomes]
rs1427281	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.80[MEX][hapmap];0.99[ASN][1000 genomes]
rs1427282	0.81[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs1648532	1.00[CHB][hapmap];0.86[YRI][hapmap]
rs17269397	0.83[CHB][hapmap]
rs1834747	1.00[ASN][1000 genomes]
rs2555356	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2657125	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs28864995	0.92[ASW][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.84[MEX][hapmap];0.98[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs347115	0.83[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.87[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.89[TSI][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes]
rs347117	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs383902	1.00[ASW][hapmap];0.92[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];0.98[MKK][hapmap];0.89[TSI][hapmap];0.95[YRI][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs387812	0.81[CEU][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.95[YRI][hapmap]
rs395601	0.81[CEU][hapmap]
rs442495	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs474875	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];0.93[GIH][hapmap];1.00[LWK][hapmap];0.80[MEX][hapmap];0.98[MKK][hapmap];0.89[TSI][hapmap];0.95[YRI][hapmap]
rs4774310	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4775086	0.83[GIH][hapmap];0.82[MKK][hapmap]
rs4775094	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];0.80[MEX][hapmap];0.80[TSI][hapmap]
rs507801	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs514049	0.83[GIH][hapmap]
rs593742	0.93[GIH][hapmap];0.88[MEX][hapmap]
rs596379	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs605928	0.91[ASW][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.80[MKK][hapmap]
rs610877	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]
rs6494029	1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs6494035	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6494036	0.83[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6494037	0.83[AMR][1000 genomes]
rs653765	0.92[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap]
rs673813	1.00[CHB][hapmap]
rs714696	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7161889	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7163162	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7168776	0.81[AFR][1000 genomes]
rs7171818	0.81[CHB][hapmap]
rs7177678	0.83[GIH][hapmap]
rs7183336	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs8043406	0.81[GIH][hapmap];0.82[MKK][hapmap]
rs972801	0.92[ASW][hapmap];0.92[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv904269	chr15:58906145-58992591	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4775087	ADAM10	cis	parietal	SCAN

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58905000-58983200	Weak transcription	Esophagus	oesophagus
2	chr15:58905600-58976400	Weak transcription	Gastric	stomach
3	chr15:58906400-58976400	Weak transcription	Small Intestine	intestine
4	chr15:58921600-58976600	Weak transcription	Right Ventricle	heart
5	chr15:58923400-58982800	Weak transcription	Lung	lung
6	chr15:58933000-58987000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr15:58934200-58976400	Weak transcription	Psoas Muscle	Psoas
8	chr15:58936000-58977000	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr15:58936200-58991400	Weak transcription	HMEC	breast
10	chr15:58947800-58976400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr15:58949400-58976400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr15:58951200-58987000	Weak transcription	NHEK	skin
13	chr15:58951600-58976400	Weak transcription	GM12878-XiMat	blood
14	chr15:58951600-58981800	Weak transcription	Fetal Brain Male	brain
15	chr15:58955200-58976400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr15:58955200-58988400	Weak transcription	Fetal Muscle Trunk	muscle
17	chr15:58955400-58976200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr15:58956600-58984400	Weak transcription	Duodenum Mucosa	Duodenum
19	chr15:58956600-58984600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr15:58956600-58987400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr15:58956800-58980000	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr15:58956800-58982000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr15:58957000-58976600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr15:58957400-58984400	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr15:58957600-58989200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr15:58958800-58989000	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr15:58959600-58976400	Weak transcription	NH-A	brain
28	chr15:58960200-58976400	Weak transcription	HSMMtube	muscle
29	chr15:58960400-58976400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr15:58960400-58982800	Weak transcription	Aorta	Aorta
31	chr15:58960400-58989600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr15:58961400-58976400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr15:58961600-58987200	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr15:58961800-58976400	Weak transcription	Brain Anterior Caudate	brain
35	chr15:58961800-58976400	Weak transcription	NHLF	lung
36	chr15:58961800-58976600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr15:58961800-58984600	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr15:58962000-58986800	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr15:58962000-58987200	Weak transcription	Fetal Lung	lung
40	chr15:58962200-58975800	Weak transcription	K562	blood
41	chr15:58965400-58976600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr15:58968200-58976400	Weak transcription	Hela-S3	cervix
43	chr15:58968200-58984000	Weak transcription	Brain Germinal Matrix	brain
44	chr15:58968400-58987000	Weak transcription	Fetal Kidney	kidney
45	chr15:58968600-58976200	Weak transcription	Liver	Liver
46	chr15:58969000-58976200	Weak transcription	Primary neutrophils fromperipheralblood	blood
47	chr15:58969200-58976400	Weak transcription	Primary hematopoietic stem cells	blood
48	chr15:58969200-58984200	Weak transcription	Fetal Intestine Large	intestine
49	chr15:58970400-58976400	Weak transcription	Brain Hippocampus Middle	brain
50	chr15:58970600-58987200	Weak transcription	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links