Variant report

Variant	rs7799479
Chromosome Location	chr7:6545142-6545143
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:6414882..6417650-chr7:6542443..6546000,3	MCF-7	breast:
2	chr7:6521451..6526537-chr7:6541616..6547791,14	MCF-7	breast:
3	chr7:6542151..6545329-chr7:6615241..6617265,3	K562	blood:
4	chr7:6530076..6532868-chr7:6542072..6546078,3	K562	blood:
5	chr7:6519406..6527633-chr7:6541095..6545327,10	MCF-7	breast:
6	chr7:6541964..6545996-chr7:6546800..6549452,3	K562	blood:

Variant related genes	Relation type
ENSG00000269781	Chromatin interaction
ENSG00000231359	Chromatin interaction
ENSG00000136240	Chromatin interaction
ENSG00000136247	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10951986	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11766121	0.84[AMR][1000 genomes]
rs11975679	0.86[AMR][1000 genomes]
rs12113949	0.95[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs12702519	0.82[AFR][1000 genomes]
rs13233173	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13239407	0.87[AMR][1000 genomes]
rs13240397	0.87[AMR][1000 genomes]
rs1403782	0.88[AMR][1000 genomes]
rs1523609	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2230263	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2347780	0.84[AMR][1000 genomes]
rs4720677	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4724813	0.95[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs58885063	0.87[AMR][1000 genomes]
rs6463561	0.86[AMR][1000 genomes]
rs6463562	0.95[AMR][1000 genomes]
rs6463563	0.87[AMR][1000 genomes]
rs6463567	0.95[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6463568	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6945009	0.95[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6953782	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6959389	0.82[AMR][1000 genomes]
rs6959558	0.87[AMR][1000 genomes]
rs6959768	0.95[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6960903	0.88[AMR][1000 genomes]
rs6964421	0.81[ASN][1000 genomes]
rs7782950	0.92[AMR][1000 genomes]
rs7786067	0.85[ASN][1000 genomes]
rs7800342	0.90[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs940243	0.92[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948912	chr7:5803903-6623553	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
2	nsv1034060	chr7:5814823-6745710	Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription 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 miRNA target site	138 gene(s)	inside rSNPs	diseases
3	nsv538711	chr7:5814823-6745710	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	138 gene(s)	inside rSNPs	diseases
4	nsv1028242	chr7:5819084-6645024	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	127 gene(s)	inside rSNPs	diseases
5	nsv538712	chr7:5819084-6645024	Weak transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	127 gene(s)	inside rSNPs	diseases
6	nsv949531	chr7:5949371-6753694	Strong transcription Bivalent Enhancer Bivalent/Poised TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	129 gene(s)	inside rSNPs	diseases
7	nsv1020236	chr7:6248930-6690377	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
8	nsv497874	chr7:6296768-6614902	Transcr. at gene 5' and 3' Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
9	esv1824738	chr7:6431933-6554222	Transcr. at gene 5' and 3' Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
10	esv1825865	chr7:6431933-6554222	Strong transcription Genic enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
11	nsv1026878	chr7:6490387-6592374	Flanking Active TSS Genic enhancers Bivalent Enhancer Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases
12	nsv830895	chr7:6514781-6722092	Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
13	nsv887429	chr7:6520676-6659509	Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
14	nsv887430	chr7:6520676-6668027	Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
15	nsv508444	chr7:6534110-6700527	Bivalent/Poised TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
16	nsv1025220	chr7:6534278-6736802	Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
17	nsv538717	chr7:6534278-6736802	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
18	nsv887431	chr7:6535517-6690240	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
19	nsv515978	chr7:6535517-6698905	Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
20	nsv887432	chr7:6535517-6713985	Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
21	esv3424341	chr7:6541877-6545575	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:6540400-6545400	Weak transcription	Fetal Heart	heart
2	chr7:6544200-6545200	Flanking Active TSS	Primary hematopoietic stem cells	blood
3	chr7:6544400-6545800	Enhancers	A549	lung
4	chr7:6544600-6546200	Enhancers	Placenta Amnion	Placenta Amnion
5	chr7:6544600-6546400	Bivalent Enhancer	Placenta	Placenta
6	chr7:6544800-6545200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr7:6544800-6545200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
8	chr7:6544800-6545200	Bivalent Enhancer	HepG2	liver
9	chr7:6544800-6545400	Enhancers	K562	blood
10	chr7:6544800-6546000	Weak transcription	Lung	lung
11	chr7:6544800-6546000	Enhancers	Pancreas	Pancrea
12	chr7:6544800-6552600	Weak transcription	Brain Anterior Caudate	brain
13	chr7:6544800-6554000	Weak transcription	Gastric	stomach
14	chr7:6544800-6556200	Weak transcription	Brain Cingulate Gyrus	brain
15	chr7:6544800-6556200	Weak transcription	Colonic Mucosa	Colon
16	chr7:6544800-6556200	Weak transcription	Esophagus	oesophagus
17	chr7:6544800-6556200	Weak transcription	Right Atrium	heart
18	chr7:6545000-6545200	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr7:6545000-6545200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
20	chr7:6545000-6545200	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr7:6545000-6545200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr7:6545000-6545400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr7:6545000-6545800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr7:6545000-6549000	Weak transcription	Fetal Intestine Small	intestine
25	chr7:6545000-6556000	Weak transcription	Primary B cells from cord blood	blood
26	chr7:6545000-6556000	Weak transcription	Primary T cells from cord blood	blood
27	chr7:6545000-6556200	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr7:6545000-6556200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr7:6545000-6556200	Weak transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links