Variant report

Variant	rs16903270
Chromosome Location	chr5:14190215-14190216
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:14143338..14144978-chr5:14188286..14191627,3	MCF-7	breast:
2	chr5:14186990..14191289-chr5:14196188..14199111,4	MCF-7	breast:
3	chr5:14188839..14190409-chr5:14192288..14195221,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000038382	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs16903265	0.92[YRI][hapmap];0.96[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs16903269	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16903321	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16903322	0.92[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56140232	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59619763	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61011080	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61665335	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73748679	0.94[AFR][1000 genomes]
rs73748685	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73748687	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73748688	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv516415	chr5:13788886-14210897	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
2	nsv534466	chr5:13847044-14246208	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	esv1830112	chr5:14147376-14222601	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv1825924	chr5:14147376-14270450	Flanking Active TSS Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv830209	chr5:14154989-14301758	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv948355	chr5:14160447-14395478	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	esv1792551	chr5:14180257-14202590	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:14175000-14191600	Weak transcription	Primary hematopoietic stem cells	blood
2	chr5:14177400-14191800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr5:14181400-14191800	Enhancers	Fetal Heart	heart
4	chr5:14183600-14193000	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr5:14184000-14191400	Weak transcription	Fetal Intestine Large	intestine
6	chr5:14184400-14197200	Weak transcription	Duodenum Mucosa	Duodenum
7	chr5:14184600-14202600	Weak transcription	Fetal Intestine Small	intestine
8	chr5:14185600-14194200	Enhancers	NHDF-Ad	bronchial
9	chr5:14185800-14190800	Enhancers	HSMMtube	muscle
10	chr5:14186000-14190600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr5:14186000-14199800	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr5:14186000-14200000	Weak transcription	Esophagus	oesophagus
13	chr5:14186400-14190800	Enhancers	NH-A	brain
14	chr5:14186400-14190800	Enhancers	NHLF	lung
15	chr5:14186600-14190400	Weak transcription	Fetal Lung	lung
16	chr5:14186600-14190800	Enhancers	Osteobl	bone
17	chr5:14186600-14191200	Weak transcription	Placenta	Placenta
18	chr5:14186600-14196600	Weak transcription	Brain Substantia Nigra	brain
19	chr5:14186800-14190400	Weak transcription	Brain Germinal Matrix	brain
20	chr5:14186800-14190800	Weak transcription	Brain Angular Gyrus	brain
21	chr5:14187200-14190800	Enhancers	HSMM	muscle
22	chr5:14187200-14192200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr5:14187200-14193800	Weak transcription	Spleen	Spleen
24	chr5:14187200-14195400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr5:14187600-14191000	Weak transcription	Primary B cells from peripheral blood	blood
26	chr5:14187600-14193800	Weak transcription	Primary B cells from cord blood	blood
27	chr5:14188000-14199800	Weak transcription	Brain Cingulate Gyrus	brain
28	chr5:14188200-14190800	Weak transcription	Liver	Liver
29	chr5:14188400-14191400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr5:14188400-14191400	Enhancers	Fetal Brain Female	brain
31	chr5:14188800-14204000	Weak transcription	Fetal Kidney	kidney
32	chr5:14189000-14190400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr5:14189000-14193800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr5:14189000-14197000	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr5:14189000-14203600	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr5:14189200-14190400	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr5:14189200-14197000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr5:14189400-14190400	Enhancers	Right Ventricle	heart
39	chr5:14189400-14191400	Enhancers	Placenta Amnion	Placenta Amnion
40	chr5:14189400-14192000	Enhancers	Colon Smooth Muscle	Colon
41	chr5:14189600-14190400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
42	chr5:14189600-14190400	Flanking Active TSS	HMEC	breast
43	chr5:14189600-14190800	Enhancers	HepG2	liver
44	chr5:14189600-14191400	Enhancers	Cortex derived primary cultured neurospheres	brain
45	chr5:14189600-14192000	Enhancers	Adipose Nuclei	Adipose
46	chr5:14189800-14190400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr5:14189800-14190400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr5:14189800-14190400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr5:14189800-14190400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr5:14189800-14190400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links