Variant report

Variant	rs1872986
Chromosome Location	chr3:112128299-112128300
allele	A/G
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	E2F4	chr3:112128269-112128469	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000243081	TF binding region

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1386897	0.84[EUR][1000 genomes]
rs1872987	0.87[EUR][1000 genomes]
rs2029318	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2087259	0.84[EUR][1000 genomes]
rs2129856	0.84[EUR][1000 genomes]
rs2263365	0.81[EUR][1000 genomes]
rs2633541	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2633591	0.84[EUR][1000 genomes]
rs2633601	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2633606	0.84[EUR][1000 genomes]
rs2633607	0.84[EUR][1000 genomes]
rs2633608	0.84[EUR][1000 genomes]
rs2683890	0.84[EUR][1000 genomes]
rs2683896	0.84[EUR][1000 genomes]
rs2683897	0.84[EUR][1000 genomes]
rs2683898	0.84[EUR][1000 genomes]
rs2683901	0.84[EUR][1000 genomes]
rs2683902	0.84[EUR][1000 genomes]
rs2683903	0.84[EUR][1000 genomes]
rs2683904	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002567	chr3:112088498-112144063	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv2830128	chr3:112090292-112144026	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv591294	chr3:112091220-112208750	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1010208	chr3:112098542-112227212	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv997659	chr3:112099148-112135687	Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1003936	chr3:112125931-112274613	Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112118600-112130400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:112123800-112128800	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr3:112125400-112130400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:112125400-112132200	Weak transcription	Placenta	Placenta
5	chr3:112126000-112128800	Enhancers	Fetal Intestine Large	intestine
6	chr3:112126200-112134000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr3:112126200-112134400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr3:112126200-112135200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:112126400-112134200	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr3:112126600-112135200	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr3:112126600-112135400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr3:112126800-112128600	Weak transcription	Fetal Intestine Small	intestine
13	chr3:112126800-112131600	Weak transcription	Primary B cells from cord blood	blood
14	chr3:112126800-112135200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr3:112126800-112136400	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr3:112127000-112131600	Weak transcription	Primary B cells from peripheral blood	blood
17	chr3:112127400-112130400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr3:112128000-112128800	Enhancers	Rectal Mucosa Donor 31	rectum
19	chr3:112128000-112129600	Weak transcription	Aorta	Aorta
20	chr3:112128200-112129200	Enhancers	Duodenum Mucosa	Duodenum
21	chr3:112128200-112132200	Weak transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links