Variant report

Variant	rs28914835
Chromosome Location	chr7:7759925-7759926
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MXI1	chr7:7757878-7760334	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:7758694..7760544-chr7:7776223..7777893,2	MCF-7	breast:

Variant related genes	Relation type
RPA3	TF binding region
ENSG00000270314	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1045580	0.97[ASN][1000 genomes]
rs10486185	0.93[EUR][1000 genomes]
rs11760820	0.85[EUR][1000 genomes]
rs11761559	0.93[EUR][1000 genomes]
rs11765275	0.93[EUR][1000 genomes]
rs11771027	0.93[EUR][1000 genomes]
rs12702639	0.91[EUR][1000 genomes]
rs13225697	0.95[EUR][1000 genomes]
rs13234396	0.93[EUR][1000 genomes]
rs13245945	0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13247039	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1468760	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1468761	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17136437	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17136498	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17169495	0.93[EUR][1000 genomes]
rs17169553	0.93[EUR][1000 genomes]
rs17169565	0.93[EUR][1000 genomes]
rs2110554	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28912668	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28912672	0.86[ASN][1000 genomes]
rs28912694	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28915973	0.93[EUR][1000 genomes]
rs34124547	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35209697	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35639902	0.93[EUR][1000 genomes]
rs35823742	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62432579	0.93[EUR][1000 genomes]
rs62432580	0.93[EUR][1000 genomes]
rs62432581	0.93[EUR][1000 genomes]
rs62432607	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6964727	0.93[EUR][1000 genomes]
rs7791543	0.93[EUR][1000 genomes]
rs7798277	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7800009	0.93[EUR][1000 genomes]
rs9648617	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026758	chr7:7187491-8075259	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
2	nsv606042	chr7:7427535-7876466	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv887477	chr7:7531819-7810122	Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	nsv1032670	chr7:7535515-8017077	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
5	nsv8043	chr7:7589195-7862802	Flanking Active TSS Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
6	nsv887478	chr7:7670718-7917360	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
7	nsv887479	chr7:7681131-7779091	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv887480	chr7:7681131-7917360	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
9	nsv887481	chr7:7681576-7779324	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv887482	chr7:7682439-7785047	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
11	nsv887483	chr7:7682439-7798217	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
12	nsv887484	chr7:7692483-7769363	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
13	nsv887485	chr7:7692483-7917360	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
14	nsv887486	chr7:7712498-7785047	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
15	esv2752177	chr7:7729247-8177689	Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
16	nsv1026564	chr7:7734846-7897847	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
17	nsv887487	chr7:7740914-7802561	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:7737600-7778800	Weak transcription	Primary hematopoietic stem cells	blood
2	chr7:7743600-7762800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr7:7743600-7772800	Weak transcription	Gastric	stomach
4	chr7:7746000-7762400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr7:7747800-7763800	Weak transcription	Left Ventricle	heart
6	chr7:7748200-7772200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr7:7749200-7770800	Weak transcription	Small Intestine	intestine
8	chr7:7750800-7760400	Weak transcription	Primary B cells from cord blood	blood
9	chr7:7752600-7790400	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr7:7755400-7772800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr7:7756800-7765600	Weak transcription	Fetal Intestine Small	intestine
12	chr7:7757000-7770600	Weak transcription	Pancreas	Pancrea
13	chr7:7757200-7760000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr7:7757800-7760800	Weak transcription	Primary B cells from peripheral blood	blood
15	chr7:7758000-7760200	Enhancers	HSMM	muscle
16	chr7:7758200-7760000	Enhancers	Muscle Satellite Cultured Cells	--
17	chr7:7758200-7761000	Enhancers	Hela-S3	cervix
18	chr7:7758200-7761600	Enhancers	Fetal Thymus	thymus
19	chr7:7758400-7760200	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr7:7758400-7760200	Enhancers	HSMMtube	muscle
21	chr7:7758400-7760600	Enhancers	Colon Smooth Muscle	Colon
22	chr7:7758400-7760800	Enhancers	Brain Germinal Matrix	brain
23	chr7:7759000-7760000	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr7:7759000-7760800	Enhancers	Rectal Smooth Muscle	rectum
25	chr7:7759000-7785800	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr7:7759200-7760000	Enhancers	GM12878-XiMat	blood
27	chr7:7759200-7760200	Enhancers	Skeletal Muscle Female	skeletal muscle
28	chr7:7759200-7761000	Enhancers	Thymus	Thymus
29	chr7:7759200-7762000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr7:7759400-7760600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr7:7759400-7772000	Weak transcription	Brain Hippocampus Middle	brain
32	chr7:7759400-7791200	Weak transcription	Esophagus	oesophagus
33	chr7:7759600-7766000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
34	chr7:7759600-7779000	Weak transcription	Primary T helper cells PMA-I stimulated	--
35	chr7:7759600-7780000	Weak transcription	Primary T cells from cord blood	blood
36	chr7:7759600-7786800	Weak transcription	Aorta	Aorta
37	chr7:7759800-7760600	Enhancers	Sigmoid Colon	Sigmoid Colon
38	chr7:7759800-7760800	Enhancers	Fetal Muscle Leg	muscle
39	chr7:7759800-7761400	Enhancers	Dnd41	blood
40	chr7:7759800-7768800	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr7:7759800-7776800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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