Variant report

Variant	rs13096944
Chromosome Location	chr3:155509077-155509078
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:155508129..155511910-chr3:155589025..155592150,5	K562	blood:
2	chr3:155508855..155510377-chr3:155571116..155573552,2	K562	blood:
3	chr3:155462546..155464118-chr3:155507587..155510459,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114805	Chromatin interaction
ENSG00000169359	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs13061403	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13066198	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13095901	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13099457	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34317674	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34729483	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35387126	0.91[EUR][1000 genomes]
rs35582521	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35769564	0.89[ASN][1000 genomes]
rs35963081	0.83[ASN][1000 genomes]
rs369155	0.87[AFR][1000 genomes]
rs4680216	0.87[AFR][1000 genomes]
rs62284707	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6441012	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6774542	0.87[ASN][1000 genomes]
rs6794117	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6806798	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73159012	0.89[ASN][1000 genomes]
rs7615604	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7642920	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7653384	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9811107	0.87[AFR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877680	chr3:155438022-155723064	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv1009635	chr3:155475438-155515484	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1007915	chr3:155476547-155513397	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv592080	chr3:155479222-155511844	Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	esv14416	chr3:155479247-155512774	ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv1006439	chr3:155481097-155515484	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv1014031	chr3:155481097-155524777	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
8	nsv999641	chr3:155481097-155534616	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
9	nsv1001756	chr3:155487190-155515484	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	esv2753744	chr3:155487298-155707298	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155480200-155509200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr3:155487000-155510600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr3:155487000-155511400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr3:155487600-155524200	Weak transcription	Fetal Heart	heart
5	chr3:155488200-155509400	Weak transcription	Left Ventricle	heart
6	chr3:155488200-155523200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr3:155489000-155523200	Weak transcription	Thymus	Thymus
8	chr3:155489800-155509600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr3:155490800-155509600	Weak transcription	Psoas Muscle	Psoas
10	chr3:155491600-155523200	Weak transcription	Rectal Smooth Muscle	rectum
11	chr3:155494400-155523600	Weak transcription	Small Intestine	intestine
12	chr3:155500400-155523200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:155500600-155509200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr3:155500600-155513600	Weak transcription	Brain Substantia Nigra	brain
15	chr3:155500800-155509200	Weak transcription	Brain Anterior Caudate	brain
16	chr3:155500800-155522600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr3:155501000-155509200	Weak transcription	Duodenum Mucosa	Duodenum
18	chr3:155501600-155509400	Weak transcription	Primary hematopoietic stem cells	blood
19	chr3:155501800-155509200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr3:155504000-155509400	Weak transcription	Fetal Muscle Leg	muscle
21	chr3:155504200-155510600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr3:155504200-155511600	Weak transcription	HSMMtube	muscle
23	chr3:155505000-155509800	Strong transcription	Fetal Intestine Small	intestine
24	chr3:155506600-155509200	Weak transcription	Spleen	Spleen
25	chr3:155506600-155523000	Weak transcription	Colon Smooth Muscle	Colon
26	chr3:155506800-155523200	Weak transcription	Fetal Kidney	kidney
27	chr3:155507000-155511400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr3:155507400-155522800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr3:155508000-155509400	Genic enhancers	K562	blood
30	chr3:155508200-155509200	Enhancers	H1 Cell Line	embryonic stem cell
31	chr3:155508200-155509200	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr3:155508200-155509200	Enhancers	iPS-20b Cell Line	embryonic stem cell
33	chr3:155508200-155509200	Enhancers	Primary neutrophils fromperipheralblood	blood
34	chr3:155508200-155509400	Enhancers	ES-I3 Cell Line	embryonic stem cell
35	chr3:155508200-155509400	Enhancers	iPS-15b Cell Line	embryonic stem cell
36	chr3:155508200-155509400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
37	chr3:155508200-155509800	Strong transcription	Primary T cells from cord blood	blood
38	chr3:155508400-155509200	Strong transcription	Fetal Brain Female	brain
39	chr3:155508400-155509800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr3:155508400-155509800	Strong transcription	Fetal Intestine Large	intestine
41	chr3:155508400-155510000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr3:155508400-155510000	Strong transcription	HepG2	liver
43	chr3:155508600-155509200	Enhancers	iPS-18 Cell Line	embryonic stem cell
44	chr3:155508600-155509400	Enhancers	H9 Cell Line	embryonic stem cell
45	chr3:155508600-155509400	Strong transcription	Brain Cingulate Gyrus	brain
46	chr3:155508600-155509600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
47	chr3:155508600-155509800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr3:155508600-155509800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr3:155508600-155509800	Strong transcription	Aorta	Aorta
50	chr3:155508600-155509800	Strong transcription	Dnd41	blood

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