Variant report

Variant	rs4896724
Chromosome Location	chr6:144792772-144792773
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10447422	0.90[GIH][hapmap]
rs10457761	0.88[EUR][1000 genomes]
rs10457764	0.90[GIH][hapmap]
rs10499230	0.90[GIH][hapmap]
rs12197654	0.81[EUR][1000 genomes]
rs12202537	0.95[GIH][hapmap]
rs12204734	0.90[GIH][hapmap]
rs12209699	0.90[GIH][hapmap]
rs1918749	0.90[GIH][hapmap]
rs4259269	0.95[GIH][hapmap]
rs4584002	0.95[CEU][hapmap];0.95[GIH][hapmap];0.81[EUR][1000 genomes]
rs4896725	0.86[EUR][1000 genomes]
rs6570634	0.97[GIH][hapmap]
rs6570635	0.81[EUR][1000 genomes]
rs6906483	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6908911	1.00[ASW][hapmap];1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.83[LWK][hapmap];0.92[MEX][hapmap];0.87[MKK][hapmap];0.94[TSI][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6912724	0.95[GIH][hapmap]
rs6934971	0.81[EUR][1000 genomes]
rs6935011	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6941929	0.93[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs7768823	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9321976	0.86[EUR][1000 genomes]
rs9321977	1.00[ASW][hapmap];0.95[CEU][hapmap];0.95[GIH][hapmap];0.88[JPT][hapmap];0.83[LWK][hapmap];0.92[MEX][hapmap];0.92[MKK][hapmap];0.94[TSI][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9496982	1.00[ASW][hapmap];0.95[CEU][hapmap];0.84[CHB][hapmap];0.82[CHD][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.86[LWK][hapmap];0.92[MEX][hapmap];0.92[MKK][hapmap];0.91[TSI][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031253	chr6:144599055-144883013	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv538461	chr6:144599055-144883013	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1023014	chr6:144717963-144806691	Strong transcription Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv886739	chr6:144719765-144796516	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1015228	chr6:144780458-144989321	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv538462	chr6:144780458-144989321	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144741000-144801800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:144756000-144810600	Weak transcription	Small Intestine	intestine
3	chr6:144763000-144813800	Weak transcription	Brain Anterior Caudate	brain
4	chr6:144763200-144793600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr6:144764400-144838800	Weak transcription	A549	lung
6	chr6:144771400-144815800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:144771800-144811800	Weak transcription	Stomach Mucosa	stomach
8	chr6:144778600-144813800	Weak transcription	Hela-S3	cervix
9	chr6:144780600-144794800	Weak transcription	NHDF-Ad	bronchial
10	chr6:144781000-144801000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr6:144781800-144806600	Weak transcription	Rectal Smooth Muscle	rectum
12	chr6:144782000-144799600	Weak transcription	Psoas Muscle	Psoas
13	chr6:144782000-144806600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:144782000-144806600	Weak transcription	Brain Substantia Nigra	brain
15	chr6:144782000-144806600	Weak transcription	Colon Smooth Muscle	Colon
16	chr6:144782000-144806600	Weak transcription	Spleen	Spleen
17	chr6:144782000-144809800	Weak transcription	Gastric	stomach
18	chr6:144782200-144793600	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr6:144782200-144806600	Weak transcription	Colonic Mucosa	Colon
20	chr6:144782400-144801200	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr6:144782800-144801000	Weak transcription	NH-A	brain
22	chr6:144783200-144795800	Weak transcription	Aorta	Aorta
23	chr6:144783400-144798800	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr6:144783600-144794800	Weak transcription	Stomach Smooth Muscle	stomach
25	chr6:144783800-144802800	Weak transcription	NHLF	lung
26	chr6:144784600-144796000	Weak transcription	Fetal Kidney	kidney
27	chr6:144784600-144812000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr6:144784800-144792800	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr6:144784800-144795400	Weak transcription	Duodenum Mucosa	Duodenum
30	chr6:144784800-144795600	Weak transcription	Placenta	Placenta
31	chr6:144785000-144801000	Weak transcription	Right Ventricle	heart
32	chr6:144785800-144794800	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr6:144786200-144795800	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr6:144786200-144796000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr6:144786200-144796000	Weak transcription	Lung	lung
36	chr6:144787800-144796200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr6:144788000-144793400	Strong transcription	Fetal Muscle Trunk	muscle
38	chr6:144788400-144795400	Weak transcription	HUVEC	blood vessel
39	chr6:144788600-144797200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr6:144788600-144806400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr6:144788600-144808800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr6:144788800-144792800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr6:144788800-144792800	Weak transcription	Primary neutrophils fromperipheralblood	blood
44	chr6:144788800-144792800	Weak transcription	Ovary	ovary
45	chr6:144788800-144795400	Weak transcription	HMEC	breast
46	chr6:144788800-144796800	Weak transcription	Fetal Stomach	stomach
47	chr6:144788800-144798200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr6:144788800-144799600	Weak transcription	Pancreas	Pancrea
49	chr6:144788800-144801000	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr6:144788800-144801000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links