Variant report

Variant	rs13321220
Chromosome Location	chr3:135885205-135885206
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:135884006..135886547-chr3:135914260..135916079,2	K562	blood:
2	chr3:135874306..135876384-chr3:135885061..135886909,2	MCF-7	breast:
3	chr3:135876607..135878545-chr3:135883402..135885999,2	K562	blood:
4	chr3:135884038..135885594-chr3:135912255..135915096,2	MCF-7	breast:
5	chr3:135883996..135885511-chr3:135967463..135969334,2	MCF-7	breast:
6	chr3:135883267..135885538-chr3:135968468..135971038,3	K562	blood:

Variant related genes	Relation type
ENSG00000114054	Chromatin interaction
ENSG00000241438	Chromatin interaction
ENSG00000174579	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10222451	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10512990	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11720497	1.00[ASN][1000 genomes]
rs12330335	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695644	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13068210	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13079205	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13081671	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13082532	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1393786	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1393787	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28519617	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28535121	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28669017	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34864445	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35320690	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35352346	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35837273	1.00[ASN][1000 genomes]
rs3905668	0.88[EUR][1000 genomes]
rs56398805	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6439629	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67109185	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs67589653	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6767060	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6769762	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6786582	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6792630	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6793835	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6799056	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6799320	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73222243	0.83[EUR][1000 genomes]
rs9653930	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9834966	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9848926	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9870122	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9881400	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][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	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv877518	chr3:135861666-135885554	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv967232	chr3:135871526-135887926	Strong transcription Genic enhancers Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135862000-135904800	Weak transcription	Hela-S3	cervix
2	chr3:135870800-135895200	Weak transcription	Fetal Intestine Small	intestine
3	chr3:135871000-135897600	Weak transcription	Aorta	Aorta
4	chr3:135871200-135905000	Weak transcription	Fetal Stomach	stomach
5	chr3:135871400-135885600	Weak transcription	Fetal Kidney	kidney
6	chr3:135872000-135887800	Weak transcription	HSMM	muscle
7	chr3:135872200-135891400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:135872800-135885400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:135872800-135903600	Weak transcription	Thymus	Thymus
10	chr3:135873600-135889800	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr3:135874400-135887400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr3:135874800-135890200	Weak transcription	Spleen	Spleen
13	chr3:135874800-135897600	Weak transcription	Gastric	stomach
14	chr3:135876400-135890200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr3:135879000-135890000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr3:135880000-135906600	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr3:135880200-135889000	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr3:135881200-135889600	Weak transcription	Osteobl	bone
19	chr3:135881400-135888200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr3:135881400-135890200	Weak transcription	Lung	lung
21	chr3:135881600-135887000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
22	chr3:135882200-135886400	Enhancers	Primary B cells from cord blood	blood
23	chr3:135882200-135886400	Enhancers	Primary T cells from cord blood	blood
24	chr3:135882200-135887000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
25	chr3:135882200-135887800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
26	chr3:135882200-135888600	Enhancers	Primary T helper naive cells from peripheral blood	blood
27	chr3:135882200-135889000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
28	chr3:135882600-135889600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr3:135882600-135890000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr3:135882800-135885600	Weak transcription	Fetal Heart	heart
31	chr3:135882800-135890200	Weak transcription	Esophagus	oesophagus
32	chr3:135882800-135890200	Weak transcription	Right Atrium	heart
33	chr3:135882800-135893000	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr3:135882800-135905200	Weak transcription	Fetal Muscle Leg	muscle
35	chr3:135883200-135890000	Weak transcription	Adipose Nuclei	Adipose
36	chr3:135883400-135885400	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr3:135883400-135887800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr3:135883400-135889400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr3:135883400-135889600	Weak transcription	Primary monocytes fromperipheralblood	blood
40	chr3:135883400-135889600	Weak transcription	HUVEC	blood vessel
41	chr3:135883400-135889800	Weak transcription	Brain Angular Gyrus	brain
42	chr3:135883400-135890000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr3:135883400-135892400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
44	chr3:135883400-135901800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr3:135883600-135885400	Weak transcription	HSMMtube	muscle
46	chr3:135883600-135885600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr3:135883600-135887800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
48	chr3:135883800-135885400	Weak transcription	Brain Substantia Nigra	brain
49	chr3:135883800-135887600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr3:135883800-135890200	Weak transcription	Brain Anterior Caudate	brain

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