Variant report

Variant	rs1045700
Chromosome Location	chr15:52601189-52601190
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52599470..52602451-chr15:52610830..52612789,2	K562	blood:
2	chr15:52590879..52593445-chr15:52599970..52603838,3	MCF-7	breast:
3	chr15:52598918..52601250-chr15:52615030..52617551,2	MCF-7	breast:
4	chr15:52600034..52602516-chr15:52612985..52614649,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MAPK6-8	chr15:52600575-52601909	NONHSAT043927

Variant related genes	Relation type
ENSG00000197535	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10518684	0.82[JPT][hapmap]
rs10518691	0.82[JPT][hapmap]
rs10518692	0.82[JPT][hapmap]
rs11853337	0.82[JPT][hapmap]
rs11854130	0.82[JPT][hapmap]
rs11855082	0.82[JPT][hapmap]
rs11855453	0.82[JPT][hapmap]
rs11855820	0.90[JPT][hapmap]
rs11855884	0.82[JPT][hapmap]
rs11856810	0.81[JPT][hapmap]
rs11856896	0.82[JPT][hapmap]
rs11858031	0.82[JPT][hapmap]
rs1464966	0.82[JPT][hapmap]
rs1474438	0.82[JPT][hapmap]
rs17613951	0.82[JPT][hapmap]
rs17651326	0.82[JPT][hapmap]
rs1869126	0.82[JPT][hapmap]
rs2290334	0.82[JPT][hapmap];0.85[YRI][hapmap]
rs2414148	0.81[JPT][hapmap]
rs3751619	0.81[JPT][hapmap];0.85[YRI][hapmap];0.82[AFR][1000 genomes]
rs3816449	0.82[JPT][hapmap]
rs4341694	0.82[JPT][hapmap]
rs4774627	0.82[JPT][hapmap]
rs940971	0.82[JPT][hapmap]
rs940972	0.82[JPT][hapmap]
rs940973	0.82[JPT][hapmap]

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	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52588200-52602200	Weak transcription	HSMM	muscle
2	chr15:52588400-52602800	Weak transcription	Aorta	Aorta
3	chr15:52591200-52602400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr15:52593600-52608600	Weak transcription	Fetal Brain Male	brain
5	chr15:52594400-52601200	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr15:52595200-52601200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr15:52595200-52601600	Weak transcription	Brain Cingulate Gyrus	brain
8	chr15:52595200-52605600	Weak transcription	Duodenum Mucosa	Duodenum
9	chr15:52595400-52605600	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr15:52595400-52610800	Weak transcription	Rectal Smooth Muscle	rectum
11	chr15:52595400-52614200	Weak transcription	Fetal Lung	lung
12	chr15:52595600-52603400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr15:52595600-52609800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr15:52595800-52601200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr15:52595800-52601600	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr15:52595800-52602000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr15:52595800-52628800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr15:52596000-52601600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr15:52596000-52601600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr15:52596000-52602200	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr15:52596000-52603000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr15:52596000-52604800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr15:52596000-52605000	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr15:52596000-52605000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr15:52596000-52608400	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr15:52596000-52608800	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr15:52596000-52611000	Weak transcription	Fetal Stomach	stomach
28	chr15:52596200-52601400	Weak transcription	Fetal Brain Female	brain
29	chr15:52596200-52602800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr15:52596200-52623600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr15:52596400-52601200	Weak transcription	Primary T helper cells fromperipheralblood	blood
32	chr15:52596400-52605000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr15:52596400-52608600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr15:52597600-52601400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr15:52597600-52608600	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr15:52597800-52601200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr15:52597800-52629600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr15:52597800-52643400	Strong transcription	Monocytes-CD14+_RO01746	blood
39	chr15:52598200-52602800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr15:52598400-52608400	Weak transcription	Brain Hippocampus Middle	brain
41	chr15:52598600-52601200	Enhancers	HUVEC	blood vessel
42	chr15:52598800-52601600	Weak transcription	HSMMtube	muscle
43	chr15:52598800-52602800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr15:52598800-52604400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr15:52599000-52601200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr15:52599000-52601800	Weak transcription	Osteobl	bone
47	chr15:52599000-52605200	Weak transcription	HMEC	breast
48	chr15:52599000-52605200	Weak transcription	NHEK	skin
49	chr15:52599200-52602800	Weak transcription	Brain Substantia Nigra	brain
50	chr15:52599200-52605000	Weak transcription	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links