Variant report

Variant	rs17024307
Chromosome Location	chr2:39971713-39971714
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10198734	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs10490332	1.00[MEX][hapmap]
rs13035505	1.00[JPT][hapmap]
rs13388310	1.00[CHB][hapmap]
rs13395966	1.00[EUR][1000 genomes]
rs1476988	1.00[JPT][hapmap]
rs17024154	0.96[EUR][1000 genomes]
rs17024166	1.00[MEX][hapmap]
rs17024276	0.96[EUR][1000 genomes]
rs17024299	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs17024325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs17038962	1.00[MEX][hapmap]
rs2058621	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs2110672	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs2110673	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs2160207	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs2192712	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs2540234	0.84[EUR][1000 genomes]
rs2716706	1.00[EUR][1000 genomes]
rs2716724	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2716726	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2716734	1.00[EUR][1000 genomes]
rs57704430	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60003713	1.00[EUR][1000 genomes]
rs6708232	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs6716262	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs6745129	1.00[EUR][1000 genomes]
rs6752871	1.00[JPT][hapmap]
rs73924917	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73924918	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73924919	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73924920	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73924934	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7576551	0.88[EUR][1000 genomes]
rs7589583	1.00[JPT][hapmap]
rs7604790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833870	chr2:39837022-40026024	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv833881	chr2:39914558-40067256	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39944400-39976600	Weak transcription	Fetal Brain Male	brain
2	chr2:39959400-39974200	Strong transcription	Primary B cells from cord blood	blood
3	chr2:39960000-39971800	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr2:39960200-39973800	Strong transcription	Primary hematopoietic stem cells	blood
5	chr2:39960200-39987200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr2:39960400-39973600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr2:39960400-39983000	Weak transcription	Stomach Mucosa	stomach
8	chr2:39961200-39974600	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr2:39961400-39984200	Weak transcription	Colonic Mucosa	Colon
10	chr2:39962200-39986800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr2:39962200-39993200	Strong transcription	Liver	Liver
12	chr2:39962800-39971800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr2:39962800-39980200	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr2:39963200-39982000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr2:39964000-39976800	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr2:39964200-39976800	Weak transcription	Brain Substantia Nigra	brain
17	chr2:39964200-39977000	Weak transcription	Brain Angular Gyrus	brain
18	chr2:39964200-39977400	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr2:39964200-39984200	Weak transcription	Psoas Muscle	Psoas
20	chr2:39964400-39977000	Weak transcription	Brain Cingulate Gyrus	brain
21	chr2:39964800-39983000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr2:39965200-39976600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr2:39965200-39980000	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr2:39965200-39983000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr2:39965200-40005000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr2:39965200-40005400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr2:39965400-39972400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
28	chr2:39965400-39984200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr2:39965600-39975400	Weak transcription	Fetal Kidney	kidney
30	chr2:39965800-39972600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr2:39966000-39973000	Weak transcription	Fetal Intestine Small	intestine
32	chr2:39966600-39976800	Weak transcription	Small Intestine	intestine
33	chr2:39966800-39975800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr2:39966800-39980000	Weak transcription	Esophagus	oesophagus
35	chr2:39966800-39980200	Weak transcription	Lung	lung
36	chr2:39966800-39983200	Weak transcription	Spleen	Spleen
37	chr2:39967000-39973000	Weak transcription	Pancreas	Pancrea
38	chr2:39967000-39976200	Weak transcription	Rectal Smooth Muscle	rectum
39	chr2:39967000-39976800	Weak transcription	Gastric	stomach
40	chr2:39967000-39981000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
41	chr2:39967000-39983000	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr2:39967000-39983200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr2:39967000-39983400	Weak transcription	Aorta	Aorta
44	chr2:39967200-39976600	Weak transcription	Brain Germinal Matrix	brain
45	chr2:39967200-39983000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr2:39967600-39976800	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr2:39967600-39991200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr2:39967800-39976400	Weak transcription	Brain Anterior Caudate	brain
49	chr2:39968200-39973000	Weak transcription	Fetal Stomach	stomach
50	chr2:39969400-39972000	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links