Variant report

Variant	rs56671772
Chromosome Location	chr22:31583300-31583301
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr22:31582003..31584515-chr22:31685360..31688125,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000100100	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs16989382	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58727240	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59592122	0.82[AFR][1000 genomes]
rs73390400	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8135875	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8138024	0.82[AFR][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	nsv459871	chr22:31551160-31680624	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
2	nsv588893	chr22:31551160-31680624	Weak transcription Flanking Active TSS Enhancers Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
3	nsv1067003	chr22:31558663-31697093	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:31557200-31591200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr22:31557400-31595200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr22:31557400-31597800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr22:31557600-31591800	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr22:31557800-31587000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr22:31557800-31588400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr22:31558600-31591400	Weak transcription	Primary hematopoietic stem cells	blood
8	chr22:31558800-31591200	Weak transcription	Fetal Brain Male	brain
9	chr22:31558800-31606000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr22:31569800-31591600	Weak transcription	Small Intestine	intestine
11	chr22:31570000-31606400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr22:31570400-31586800	Strong transcription	Fetal Stomach	stomach
13	chr22:31570400-31597800	Weak transcription	HUVEC	blood vessel
14	chr22:31572200-31600000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr22:31574200-31590800	Weak transcription	Brain Substantia Nigra	brain
16	chr22:31574400-31601600	Weak transcription	Fetal Heart	heart
17	chr22:31574800-31587200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr22:31575800-31588600	Weak transcription	Colon Smooth Muscle	Colon
19	chr22:31575800-31588600	Weak transcription	NHLF	lung
20	chr22:31575800-31591600	Weak transcription	NH-A	brain
21	chr22:31575800-31602600	Weak transcription	Stomach Mucosa	stomach
22	chr22:31575800-31607600	Weak transcription	Hela-S3	cervix
23	chr22:31576000-31583400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr22:31576000-31583400	Weak transcription	HMEC	breast
25	chr22:31576000-31583600	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr22:31576000-31591200	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr22:31576000-31591400	Weak transcription	Fetal Kidney	kidney
28	chr22:31576000-31607800	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr22:31576000-31607800	Weak transcription	A549	lung
30	chr22:31576400-31584800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
31	chr22:31577800-31587000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr22:31577800-31588600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr22:31578800-31591400	Weak transcription	HSMM	muscle
34	chr22:31579000-31584800	Strong transcription	Lung	lung
35	chr22:31579200-31584400	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr22:31579200-31607400	Weak transcription	K562	blood
37	chr22:31579400-31588600	Weak transcription	Right Ventricle	heart
38	chr22:31580600-31587000	Strong transcription	Fetal Intestine Small	intestine
39	chr22:31580800-31587200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr22:31580800-31607600	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr22:31581000-31583600	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr22:31581000-31584200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr22:31581000-31584200	Strong transcription	Fetal Lung	lung
44	chr22:31581000-31584800	Strong transcription	Fetal Intestine Large	intestine
45	chr22:31581000-31587400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr22:31581000-31592800	Strong transcription	Fetal Muscle Leg	muscle
47	chr22:31581000-31593000	Strong transcription	Primary T cells from cord blood	blood
48	chr22:31581000-31599200	Strong transcription	Primary T helper cells PMA-I stimulated	--
49	chr22:31581200-31584200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr22:31581200-31584800	Strong transcription	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links