Variant report

Variant	rs7809874
Chromosome Location	chr7:106828134-106828135
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:7)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:7 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr7:106827963-106829063	HepG2	liver:	n/a	n/a
2	POLR2A	chr7:106828106-106828292	MCF-7	breast:	n/a	n/a
3	POLR2A	chr7:106827905-106828389	Hela-S3	cervix:	n/a	n/a
4	POLR2A	chr7:106827978-106828642	A549	lung:	n/a	n/a
5	POLR2A	chr7:106827826-106829446	K562	blood:	n/a	n/a
6	POLR2A	chr7:106827884-106828506	Hela-S3	cervix:	n/a	n/a
7	POLR2A	chr7:106828074-106828491	K562	blood:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:106824050..106828734-chr7:106829521..106833265,5	K562	blood:
2	chr7:106827310..106829106-chr7:106852636..106856813,3	K562	blood:
3	chr7:106827216..106829582-chr7:106829647..106832693,3	MCF-7	breast:
4	chr7:106827659..106829600-chr7:106833923..106836575,2	MCF-7	breast:

No data

Variant related genes	Relation type
HBP1	TF binding region
ENSG00000105856	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs17153965	1.00[AMR][1000 genomes]
rs56726619	1.00[AMR][1000 genomes]
rs56867358	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56907291	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57774882	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58020484	1.00[AMR][1000 genomes]
rs58860874	1.00[AMR][1000 genomes]
rs59169077	1.00[AMR][1000 genomes]
rs60972363	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61005518	1.00[AMR][1000 genomes]
rs61091872	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61123979	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61297311	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6466161	1.00[AMR][1000 genomes]
rs6942972	1.00[AMR][1000 genomes]
rs6943016	1.00[AMR][1000 genomes]
rs6946848	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6955667	1.00[AMR][1000 genomes]
rs6955968	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6963190	0.90[YRI][hapmap];0.92[AFR][1000 genomes]
rs6967752	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6971571	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6974296	1.00[AMR][1000 genomes]
rs6975065	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7787027	0.80[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7790812	1.00[AMR][1000 genomes]
rs7795905	1.00[AMR][1000 genomes]
rs9969172	1.00[AMR][1000 genomes]
rs9969363	1.00[AMR][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	nsv831087	chr7:106673465-106872460	Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	esv3383027	chr7:106802625-107096474	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:106810600-106836800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr7:106810800-106828200	Weak transcription	Esophagus	oesophagus
3	chr7:106810800-106836200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr7:106811000-106828800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr7:106815200-106828200	Weak transcription	Pancreas	Pancrea
6	chr7:106815200-106849400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr7:106816000-106843600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr7:106817400-106851400	Strong transcription	Primary B cells from peripheral blood	blood
9	chr7:106819600-106851800	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr7:106819800-106846600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr7:106819800-106851600	Strong transcription	Dnd41	blood
12	chr7:106820000-106851200	Strong transcription	Primary neutrophils fromperipheralblood	blood
13	chr7:106820000-106851600	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr7:106820200-106828600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr7:106820200-106828800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr7:106820200-106833600	Strong transcription	HUES64 Cell Line	embryonic stem cell
17	chr7:106820200-106834600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr7:106820200-106837000	Weak transcription	Psoas Muscle	Psoas
19	chr7:106820200-106848400	Strong transcription	Placenta	Placenta
20	chr7:106820200-106851200	Strong transcription	Primary B cells from cord blood	blood
21	chr7:106820200-106851800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr7:106820200-106851800	Strong transcription	Fetal Thymus	thymus
23	chr7:106820400-106834000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr7:106820400-106834000	Strong transcription	Primary hematopoietic stem cells	blood
25	chr7:106820400-106845200	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr7:106820400-106848200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr7:106821000-106828200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr7:106821000-106834200	Strong transcription	HepG2	liver
29	chr7:106821000-106840000	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr7:106821000-106848400	Strong transcription	Liver	Liver
31	chr7:106821000-106854600	Strong transcription	Primary T cells from cord blood	blood
32	chr7:106821200-106832600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr7:106821200-106834000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr7:106821200-106841600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr7:106821200-106845800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr7:106821200-106846600	Strong transcription	Rectal Mucosa Donor 31	rectum
37	chr7:106821200-106851800	Strong transcription	Primary T cells fromperipheralblood	blood
38	chr7:106821200-106851800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr7:106821200-106851800	Strong transcription	Rectal Mucosa Donor 29	rectum
40	chr7:106821400-106834200	Strong transcription	HSMM	muscle
41	chr7:106821400-106834400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr7:106821400-106834400	Weak transcription	Fetal Heart	heart
43	chr7:106821400-106834600	Strong transcription	Fetal Lung	lung
44	chr7:106821400-106837200	Weak transcription	Stomach Mucosa	stomach
45	chr7:106821400-106851800	Strong transcription	Duodenum Mucosa	Duodenum
46	chr7:106821600-106831200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr7:106821600-106834800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr7:106821600-106851600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
49	chr7:106821600-106851800	Strong transcription	Primary T helper cells fromperipheralblood	blood
50	chr7:106821800-106828200	Weak transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links