Variant report

Variant	rs936603
Chromosome Location	chr15:42583888-42583889
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	chr15:42581427..42583072-chr15:42583575..42585107,2	K562	blood:
2	chr15:42573833..42576317-chr15:42582410..42584049,2	K562	blood:

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs11070367	1.00[EUR][1000 genomes]
rs11070371	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11633276	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11856807	1.00[EUR][1000 genomes]
rs12102204	1.00[EUR][1000 genomes]
rs12902924	1.00[EUR][1000 genomes]
rs1659214	1.00[EUR][1000 genomes]
rs1659216	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1659220	1.00[EUR][1000 genomes]
rs1659223	1.00[EUR][1000 genomes]
rs1659225	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2244773	1.00[EUR][1000 genomes]
rs2289293	1.00[EUR][1000 genomes]
rs2289297	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2412675	1.00[EUR][1000 genomes]
rs2412676	1.00[EUR][1000 genomes]
rs2412678	1.00[EUR][1000 genomes]
rs2412683	1.00[EUR][1000 genomes]
rs2412684	1.00[EUR][1000 genomes]
rs2412689	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2412694	1.00[EUR][1000 genomes]
rs2412695	1.00[EUR][1000 genomes]
rs2412716	1.00[EUR][1000 genomes]
rs2578651	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2595935	1.00[EUR][1000 genomes]
rs2620372	1.00[EUR][1000 genomes]
rs28364379	1.00[EUR][1000 genomes]
rs28364398	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28364400	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28364462	1.00[EUR][1000 genomes]
rs28364472	1.00[EUR][1000 genomes]
rs28364491	1.00[EUR][1000 genomes]
rs28364495	1.00[EUR][1000 genomes]
rs28364498	1.00[EUR][1000 genomes]
rs28364500	1.00[EUR][1000 genomes]
rs28364503	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28364504	1.00[EUR][1000 genomes]
rs28364507	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28364509	1.00[EUR][1000 genomes]
rs28364511	1.00[EUR][1000 genomes]
rs28364519	1.00[EUR][1000 genomes]
rs28364522	1.00[EUR][1000 genomes]
rs28364523	1.00[EUR][1000 genomes]
rs28364524	1.00[EUR][1000 genomes]
rs28364526	1.00[EUR][1000 genomes]
rs28364540	1.00[EUR][1000 genomes]
rs28364541	1.00[EUR][1000 genomes]
rs28364544	1.00[EUR][1000 genomes]
rs28364557	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28489155	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28621687	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28745879	1.00[EUR][1000 genomes]
rs2899044	1.00[EUR][1000 genomes]
rs3743002	1.00[EUR][1000 genomes]
rs3803342	1.00[EUR][1000 genomes]
rs4556762	1.00[EUR][1000 genomes]
rs4923936	1.00[EUR][1000 genomes]
rs4923937	1.00[EUR][1000 genomes]
rs4923939	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4924640	1.00[EUR][1000 genomes]
rs4924641	1.00[EUR][1000 genomes]
rs4924642	1.00[EUR][1000 genomes]
rs4924643	1.00[EUR][1000 genomes]
rs4924649	1.00[EUR][1000 genomes]
rs4924657	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4924670	1.00[EUR][1000 genomes]
rs5028173	1.00[EUR][1000 genomes]
rs595661	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6493024	1.00[EUR][1000 genomes]
rs6493026	1.00[EUR][1000 genomes]
rs6493031	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6493034	1.00[EUR][1000 genomes]
rs6493038	1.00[EUR][1000 genomes]
rs6493041	1.00[EUR][1000 genomes]
rs6493047	1.00[EUR][1000 genomes]
rs655704	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs67384392	1.00[EUR][1000 genomes]
rs685447	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7161982	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7164484	1.00[EUR][1000 genomes]
rs7169553	1.00[EUR][1000 genomes]
rs7170943	1.00[EUR][1000 genomes]
rs7177193	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7177463	1.00[EUR][1000 genomes]
rs7177521	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7178396	1.00[EUR][1000 genomes]
rs7181758	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7182777	1.00[EUR][1000 genomes]
rs7183399	1.00[EUR][1000 genomes]
rs7183843	1.00[EUR][1000 genomes]
rs8023568	1.00[EUR][1000 genomes]
rs8023678	1.00[EUR][1000 genomes]
rs8040720	1.00[EUR][1000 genomes]
rs8042603	1.00[EUR][1000 genomes]
rs8043033	1.00[EUR][1000 genomes]
rs9920851	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv529687	chr15:42157320-42621682	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
3	nsv1049445	chr15:42239738-42830484	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
4	nsv542366	chr15:42239738-42830484	Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking 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 miRNA target site	73 gene(s)	inside rSNPs	diseases
5	nsv904133	chr15:42528982-42681057	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42567200-42623600	Weak transcription	Fetal Brain Male	brain
2	chr15:42568400-42604600	Weak transcription	NH-A	brain
3	chr15:42568400-42656000	Weak transcription	Small Intestine	intestine
4	chr15:42568600-42584600	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr15:42568600-42584800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr15:42568600-42585000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr15:42568600-42585200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr15:42568600-42587000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr15:42568600-42587000	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr15:42568600-42593000	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr15:42568600-42602600	Weak transcription	Fetal Heart	heart
12	chr15:42568600-42630800	Weak transcription	Dnd41	blood
13	chr15:42569000-42591000	Strong transcription	Primary B cells from peripheral blood	blood
14	chr15:42569400-42602800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr15:42570200-42585600	Strong transcription	Primary B cells from cord blood	blood
16	chr15:42570200-42585800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr15:42570200-42586600	Strong transcription	Adipose Nuclei	Adipose
18	chr15:42570600-42586600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr15:42573400-42635800	Weak transcription	Gastric	stomach
20	chr15:42573600-42584200	Weak transcription	Colon Smooth Muscle	Colon
21	chr15:42573600-42587200	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr15:42573600-42602600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr15:42573800-42592000	Weak transcription	Fetal Brain Female	brain
24	chr15:42573800-42605600	Weak transcription	Pancreas	Pancrea
25	chr15:42574200-42586200	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr15:42574800-42584800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr15:42575000-42585000	Weak transcription	HSMMtube	muscle
28	chr15:42575200-42584200	Weak transcription	GM12878-XiMat	blood
29	chr15:42575400-42584800	Weak transcription	Psoas Muscle	Psoas
30	chr15:42576000-42592400	Strong transcription	Skeletal Muscle Female	skeletal muscle
31	chr15:42576200-42584800	Weak transcription	Spleen	Spleen
32	chr15:42576200-42585000	Weak transcription	Thymus	Thymus
33	chr15:42576200-42591600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr15:42576200-42593000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
35	chr15:42576200-42602800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr15:42576200-42605800	Weak transcription	Esophagus	oesophagus
37	chr15:42576400-42585000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr15:42576400-42602000	Weak transcription	Colonic Mucosa	Colon
39	chr15:42576400-42620800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr15:42576600-42585000	Weak transcription	HSMM	muscle
41	chr15:42576600-42585200	Weak transcription	Brain Hippocampus Middle	brain
42	chr15:42577000-42590000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr15:42577200-42584800	Weak transcription	Placenta	Placenta
44	chr15:42577800-42616200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr15:42578600-42592800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr15:42578800-42584400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr15:42578800-42585600	Strong transcription	Brain Inferior Temporal Lobe	brain
48	chr15:42578800-42586600	Strong transcription	Primary T cells fromperipheralblood	blood
49	chr15:42578800-42587200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr15:42579000-42586800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links