Variant report

Variant	rs17613911
Chromosome Location	chr14:81246919-81246920
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:81236424..81238207-chr14:81245492..81248423,2	MCF-7	breast:

Extended variants
information (count: 66 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10136404	0.81[CHB][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap]
rs1016507	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs1025253	0.88[CHB][hapmap];0.85[CHD][hapmap];0.81[JPT][hapmap];0.86[MEX][hapmap];0.83[TSI][hapmap]
rs1035144	0.80[JPT][hapmap]
rs11623023	0.82[AMR][1000 genomes]
rs11623416	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs12431821	1.00[CHB][hapmap];0.91[CHD][hapmap];0.89[GIH][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];0.83[TSI][hapmap];0.82[AMR][1000 genomes]
rs12878945	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs12880014	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12886388	0.81[AMR][1000 genomes]
rs12888082	1.00[CHB][hapmap];0.91[CHD][hapmap];0.87[GIH][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap]
rs12891585	1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12892825	0.80[JPT][hapmap]
rs12895801	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs12896065	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1458993	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs1597320	1.00[CEU][hapmap];0.88[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17111270	0.80[TSI][hapmap]
rs17541411	1.00[YRI][hapmap]
rs17542615	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs17542712	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs17614081	1.00[CHB][hapmap];0.81[JPT][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1797670	0.85[CHB][hapmap]
rs1960882	1.00[YRI][hapmap]
rs1992973	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2114703	0.80[JPT][hapmap]
rs2215981	0.80[JPT][hapmap]
rs2217176	0.88[CHB][hapmap];0.85[CHD][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap]
rs2246617	0.87[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs228120	0.88[CHB][hapmap];0.81[JPT][hapmap]
rs228125	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs2371413	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2371416	0.94[CHB][hapmap]
rs2371457	0.88[CHB][hapmap];0.81[JPT][hapmap]
rs2371462	0.82[MEX][hapmap]
rs2590480	1.00[CEU][hapmap];0.88[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2596118	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34848301	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3742721	0.80[JPT][hapmap]
rs3742722	0.80[JPT][hapmap]
rs4411444	0.80[JPT][hapmap]
rs4523859	1.00[CHB][hapmap];0.88[CHD][hapmap];0.87[GIH][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4899782	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs4903948	0.88[CHB][hapmap];0.85[CHD][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];0.85[TSI][hapmap]
rs4903954	0.82[JPT][hapmap]
rs61979448	0.83[AMR][1000 genomes]
rs61979449	0.84[AMR][1000 genomes]
rs61979451	0.83[AMR][1000 genomes]
rs61979452	0.83[AMR][1000 genomes]
rs6574605	1.00[CEU][hapmap];0.88[CHB][hapmap];0.94[CHD][hapmap];0.92[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6574613	0.81[CHB][hapmap];0.82[CHD][hapmap];0.81[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap]
rs7141434	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7145233	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7148368	0.89[CHB][hapmap];0.82[CHD][hapmap];0.80[JPT][hapmap];0.86[MEX][hapmap]
rs7148618	1.00[CHB][hapmap]
rs7150858	0.89[CHB][hapmap];0.82[CHD][hapmap];0.82[GIH][hapmap];0.80[JPT][hapmap];0.86[MEX][hapmap]
rs7153979	0.88[CHB][hapmap];0.88[CHD][hapmap];0.81[JPT][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap]
rs7154132	0.88[CHB][hapmap];0.85[CHD][hapmap];0.84[GIH][hapmap];0.81[JPT][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap]
rs759916	0.94[CHB][hapmap];0.88[CHD][hapmap];0.84[GIH][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap]
rs8005809	1.00[CEU][hapmap];0.87[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8009120	0.80[JPT][hapmap]
rs8017943	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8021137	0.88[CHB][hapmap];0.81[JPT][hapmap]
rs8022411	0.88[CHB][hapmap];0.81[JPT][hapmap]
rs8023233	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]

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	nsv869348	chr14:80921098-81535754	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs17613911	VIPAR	cis	parietal	SCAN
rs17613911	C14orf145	cis	parietal	SCAN
rs17613911	C14orf145	cis	cerebellum	SCAN

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:81192800-81305400	Weak transcription	Primary B cells from cord blood	blood
2	chr14:81199800-81248600	Weak transcription	Primary T cells from cord blood	blood
3	chr14:81205000-81261000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr14:81207600-81265400	Weak transcription	Primary hematopoietic stem cells	blood
5	chr14:81209600-81248200	Weak transcription	HSMM	muscle
6	chr14:81222400-81260000	Weak transcription	Fetal Brain Female	brain
7	chr14:81223200-81250800	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr14:81227000-81260800	Weak transcription	NH-A	brain
9	chr14:81227400-81258000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr14:81231200-81251400	Weak transcription	A549	lung
11	chr14:81232000-81251200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr14:81232400-81260800	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr14:81235200-81253600	Weak transcription	HMEC	breast
14	chr14:81235400-81266600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr14:81236600-81251200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr14:81237200-81248400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr14:81237400-81260600	Weak transcription	Right Ventricle	heart
18	chr14:81237600-81255800	Weak transcription	NHLF	lung
19	chr14:81237600-81264600	Weak transcription	Psoas Muscle	Psoas
20	chr14:81238000-81267000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr14:81238800-81251400	Weak transcription	Ovary	ovary
22	chr14:81239200-81250800	Weak transcription	Aorta	Aorta
23	chr14:81239200-81251000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
24	chr14:81239200-81258800	Weak transcription	Adipose Nuclei	Adipose
25	chr14:81239400-81250800	Weak transcription	Left Ventricle	heart
26	chr14:81239400-81257800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr14:81239400-81260200	Weak transcription	NHEK	skin
28	chr14:81240800-81260800	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr14:81241000-81263200	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr14:81242200-81261000	Weak transcription	Liver	Liver
31	chr14:81243800-81250800	Weak transcription	Thymus	Thymus
32	chr14:81243800-81251400	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr14:81243800-81259000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr14:81243800-81261200	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr14:81244000-81251400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr14:81244400-81248000	Weak transcription	Fetal Thymus	thymus
37	chr14:81246200-81247200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr14:81246200-81248400	Weak transcription	Dnd41	blood
39	chr14:81246200-81259000	Weak transcription	Lung	lung
40	chr14:81246800-81271600	Weak transcription	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links