Variant report

Variant	rs28568990
Chromosome Location	chr7:7857401-7857402
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:7856295..7858944-chr7:7878123..7880434,2	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs17137697	1.00[ASN][1000 genomes]
rs57771369	1.00[ASN][1000 genomes]
rs57831171	1.00[ASN][1000 genomes]
rs73673827	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 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	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
4	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
5	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
6	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
7	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
8	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
9	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
10	nsv887489	chr7:7770203-7913311	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
11	nsv1027770	chr7:7797431-7957507	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
12	nsv538722	chr7:7797431-7957507	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	nsv887490	chr7:7801684-7908970	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	10 gene(s)	inside rSNPs	diseases
14	nsv523479	chr7:7821594-7909899	ZNF genes & repeats Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region	8 gene(s)	inside rSNPs	diseases
15	nsv917172	chr7:7854632-8807385	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:7825600-7864400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr7:7832000-7869200	Weak transcription	HSMMtube	muscle
3	chr7:7832400-7869400	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr7:7836000-7869400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr7:7837200-7876400	Weak transcription	Aorta	Aorta
6	chr7:7837200-7883400	Weak transcription	Left Ventricle	heart
7	chr7:7843400-7860600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr7:7852200-7858400	Weak transcription	Right Atrium	heart
9	chr7:7854400-7857600	Enhancers	Primary T cells fromperipheralblood	blood
10	chr7:7854400-7857600	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr7:7854400-7857600	Enhancers	Primary T killer memory cells from peripheral blood	blood
12	chr7:7854400-7858000	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr7:7854600-7868200	Weak transcription	Gastric	stomach
14	chr7:7855400-7857600	Enhancers	Fetal Thymus	thymus
15	chr7:7855400-7869600	Weak transcription	HepG2	liver
16	chr7:7856000-7860600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr7:7856200-7857600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
18	chr7:7856200-7857600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
19	chr7:7856200-7857600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
20	chr7:7856200-7887200	Weak transcription	Right Ventricle	heart
21	chr7:7856400-7862200	Enhancers	Primary B cells from peripheral blood	blood
22	chr7:7856400-7883400	Weak transcription	Psoas Muscle	Psoas
23	chr7:7856600-7857600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
24	chr7:7856600-7858000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr7:7856600-7858600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr7:7856600-7861200	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr7:7856600-7875800	Weak transcription	Small Intestine	intestine
28	chr7:7856600-7882800	Weak transcription	Thymus	Thymus
29	chr7:7856800-7857600	Enhancers	Pancreas	Pancrea
30	chr7:7856800-7858600	ZNF genes & repeats	GM12878-XiMat	blood
31	chr7:7856800-7860200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr7:7856800-7864000	Weak transcription	Primary T cells from cord blood	blood
33	chr7:7856800-7865400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr7:7857000-7857600	Enhancers	Primary B cells from cord blood	blood
35	chr7:7857000-7869600	Weak transcription	Stomach Mucosa	stomach
36	chr7:7857400-7861000	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr7:7857400-7864200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links