Variant report

Variant	rs10084410
Chromosome Location	chr2:32296099-32296100
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:32294649..32296576-chr2:32297962..32299990,3	K562	blood:
2	chr2:32295719..32297694-chr2:32389118..32390763,2	K562	blood:
3	chr2:32287760..32290675-chr2:32295373..32298097,4	K562	blood:
4	chr2:32294423..32296947-chr2:32389682..32392119,3	K562	blood:
5	chr2:32286904..32290628-chr2:32293788..32299321,9	MCF-7	breast:
6	chr2:32288481..32290380-chr2:32294426..32296430,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152683	Chromatin interaction
ENSG00000272716	Chromatin interaction
ENSG00000021574	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10084280	1.00[CEU][hapmap];0.83[GIH][hapmap];0.92[TSI][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10169478	1.00[ASN][1000 genomes]
rs10189895	1.00[ASN][1000 genomes]
rs10199511	0.91[CEU][hapmap]
rs12712326	1.00[ASN][1000 genomes]
rs13423310	0.83[AFR][1000 genomes]
rs13425083	1.00[ASN][1000 genomes]
rs13428933	1.00[ASN][1000 genomes]
rs13429391	1.00[CEU][hapmap];0.92[TSI][hapmap];1.00[ASN][1000 genomes]
rs13431616	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs160806	1.00[ASN][1000 genomes]
rs17011642	1.00[ASN][1000 genomes]
rs17011716	1.00[CEU][hapmap];0.92[TSI][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17011828	1.00[ASN][1000 genomes]
rs17011863	1.00[CEU][hapmap];0.92[TSI][hapmap]
rs221205	1.00[ASN][1000 genomes]
rs62142068	1.00[ASN][1000 genomes]
rs62142082	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62142083	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62142084	1.00[ASN][1000 genomes]
rs62142085	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62142088	1.00[ASN][1000 genomes]
rs62142093	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62142107	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62142443	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62142444	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7583597	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7596656	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532648	chr2:31591498-32312698	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	nsv949102	chr2:32030307-33011548	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
3	nsv820001	chr2:32293362-32297072	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv828698	chr2:32293493-32296584	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv833670	chr2:32295778-32481857	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 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	chr2:32289600-32330800	Weak transcription	Spleen	Spleen
2	chr2:32289800-32297000	Weak transcription	Psoas Muscle	Psoas
3	chr2:32289800-32298400	Weak transcription	Small Intestine	intestine
4	chr2:32289800-32304000	Weak transcription	Ovary	ovary
5	chr2:32289800-32313800	Weak transcription	Stomach Smooth Muscle	stomach
6	chr2:32289800-32314600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr2:32289800-32315800	Weak transcription	Colon Smooth Muscle	Colon
8	chr2:32289800-32319400	Weak transcription	Aorta	Aorta
9	chr2:32289800-32319400	Weak transcription	Pancreas	Pancrea
10	chr2:32289800-32330800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr2:32290000-32297400	Weak transcription	Osteobl	bone
12	chr2:32290000-32299600	Weak transcription	Thymus	Thymus
13	chr2:32290000-32315800	Weak transcription	Fetal Kidney	kidney
14	chr2:32290000-32315800	Weak transcription	HSMM	muscle
15	chr2:32290000-32316600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr2:32290000-32318600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr2:32290200-32313800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr2:32290200-32330800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr2:32290400-32297400	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr2:32290400-32298200	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr2:32290400-32304000	Weak transcription	Adipose Nuclei	Adipose
22	chr2:32290400-32313400	Weak transcription	Fetal Thymus	thymus
23	chr2:32290400-32313800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr2:32290400-32315000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr2:32290400-32315000	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr2:32290400-32315000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr2:32290400-32331000	Weak transcription	Rectal Smooth Muscle	rectum
28	chr2:32290400-32353400	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr2:32290600-32314800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr2:32290600-32330800	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr2:32290800-32299000	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr2:32290800-32313600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr2:32290800-32313800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr2:32290800-32317200	Weak transcription	Brain Hippocampus Middle	brain
35	chr2:32290800-32330200	Weak transcription	Primary hematopoietic stem cells	blood
36	chr2:32291000-32298400	Weak transcription	Primary T cells from cord blood	blood
37	chr2:32291000-32299000	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr2:32291000-32301600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr2:32291000-32304200	Weak transcription	GM12878-XiMat	blood
40	chr2:32291000-32314800	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr2:32291000-32330400	Weak transcription	Brain Anterior Caudate	brain
42	chr2:32291000-32330800	Weak transcription	Brain Angular Gyrus	brain
43	chr2:32291000-32332600	Weak transcription	A549	lung
44	chr2:32291200-32301200	Weak transcription	HMEC	breast
45	chr2:32291400-32296600	Weak transcription	Fetal Intestine Large	intestine
46	chr2:32291400-32296800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr2:32291400-32297800	Weak transcription	Brain Germinal Matrix	brain
48	chr2:32291400-32298000	Weak transcription	HepG2	liver
49	chr2:32291400-32299000	Weak transcription	Duodenum Mucosa	Duodenum
50	chr2:32291400-32327600	Weak transcription	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links