Variant report

Variant	rs16956783
Chromosome Location	chr15:72649789-72649790
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:72637251..72641057-chr15:72647235..72650541,5	K562	blood:
2	chr15:72649583..72651262-chr15:72653562..72655522,2	MCF-7	breast:
3	chr15:72644683..72646818-chr15:72649566..72652773,3	MCF-7	breast:
4	chr15:72643627..72645538-chr15:72648082..72650902,2	K562	blood:
5	chr15:72649215..72653843-chr15:72765321..72768285,4	MCF-7	breast:
6	chr15:72648214..72651492-chr15:72765050..72767874,3	MCF-7	breast:
7	chr15:72633335..72635089-chr15:72648050..72650924,2	K562	blood:

Variant related genes	Relation type
ENSG00000213614	Chromatin interaction
ENSG00000261423	Chromatin interaction
ENSG00000166233	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10152810	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10467945	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11857752	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12437909	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12440768	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12442850	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12591626	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12593434	1.00[CEU][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12595243	1.00[CEU][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap]
rs16956788	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16956884	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16956890	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16956893	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap]
rs16956917	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16956997	1.00[CEU][hapmap];0.86[JPT][hapmap]
rs16957050	1.00[CEU][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];1.00[AFR][1000 genomes]
rs16957159	1.00[AFR][1000 genomes]
rs17841142	1.00[EUR][1000 genomes]
rs1800428	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2303448	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs35778233	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3784586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4556749	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4777504	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4777505	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4777506	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4777507	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7174287	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431395	chr15:72266174-72701777	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv530817	chr15:72350885-72773374	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases
3	esv3430860	chr15:72373723-72849907	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72613200-72651000	Weak transcription	Stomach Mucosa	stomach
2	chr15:72613200-72666800	Weak transcription	Fetal Heart	heart
3	chr15:72613400-72667600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr15:72627800-72650400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr15:72630200-72656200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr15:72632400-72650000	Weak transcription	Right Atrium	heart
7	chr15:72633000-72650400	Strong transcription	Primary T cells fromperipheralblood	blood
8	chr15:72633000-72651200	Strong transcription	Thymus	Thymus
9	chr15:72633000-72652000	Strong transcription	Fetal Stomach	stomach
10	chr15:72633400-72651600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr15:72633600-72650000	Strong transcription	Brain Cingulate Gyrus	brain
12	chr15:72633600-72650400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr15:72633800-72651200	Strong transcription	Primary B cells from peripheral blood	blood
14	chr15:72634000-72649800	Strong transcription	Sigmoid Colon	Sigmoid Colon
15	chr15:72634000-72650000	Strong transcription	Liver	Liver
16	chr15:72634000-72650800	Strong transcription	Stomach Smooth Muscle	stomach
17	chr15:72634400-72650400	Strong transcription	Aorta	Aorta
18	chr15:72634400-72650600	Strong transcription	Fetal Muscle Trunk	muscle
19	chr15:72634600-72650600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
20	chr15:72634600-72667400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr15:72634800-72649800	Strong transcription	Brain Germinal Matrix	brain
22	chr15:72635400-72651400	Strong transcription	Primary T cells from cord blood	blood
23	chr15:72635600-72650200	Strong transcription	Fetal Thymus	thymus
24	chr15:72635800-72649800	Strong transcription	Brain Anterior Caudate	brain
25	chr15:72635800-72650000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr15:72635800-72650200	Strong transcription	Primary T helper cells PMA-I stimulated	--
27	chr15:72635800-72650600	Strong transcription	Primary T helper cells fromperipheralblood	blood
28	chr15:72636000-72651200	Strong transcription	GM12878-XiMat	blood
29	chr15:72636000-72651600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr15:72636400-72650000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr15:72636400-72652000	Strong transcription	Primary B cells from cord blood	blood
32	chr15:72636800-72650400	Strong transcription	HepG2	liver
33	chr15:72639400-72649800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr15:72639400-72652600	Strong transcription	Fetal Intestine Small	intestine
35	chr15:72639600-72650200	Strong transcription	Fetal Intestine Large	intestine
36	chr15:72640600-72667200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr15:72641800-72664800	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr15:72642000-72667000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr15:72644000-72660400	Weak transcription	Fetal Brain Male	brain
40	chr15:72645200-72651200	Strong transcription	Primary hematopoietic stem cells	blood
41	chr15:72645600-72651200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
42	chr15:72645800-72650400	Weak transcription	HMEC	breast
43	chr15:72646400-72650400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr15:72647200-72650800	Weak transcription	NH-A	brain
45	chr15:72647200-72651000	Weak transcription	HUVEC	blood vessel
46	chr15:72647600-72651000	Weak transcription	Small Intestine	intestine
47	chr15:72648000-72651000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr15:72648200-72650400	Genic enhancers	Primary monocytes fromperipheralblood	blood
49	chr15:72648400-72650200	Strong transcription	K562	blood
50	chr15:72648400-72667600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links