Variant report

Variant	rs12282037
Chromosome Location	chr11:119610269-119610270
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:119598556..119602502-chr11:119605282..119610930,5	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CTD-2523D13.1.1-1	chr11:119610241-119610354	XLOC_009299
2	lnc-CTD-2523D13.1.1-1	chr11:119610241-119610498	NONHSAT024688
3	lnc-CTD-2523D13.1.1-1	chr11:119610085-119610579	FPKM1_group_5475_transcript_3

Variant related genes	Relation type
ENSG00000110400	Chromatin interaction
ENSG00000254854	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10892431	1.00[EUR][1000 genomes]
rs11217391	1.00[EUR][1000 genomes]
rs11217398	1.00[EUR][1000 genomes]
rs11217399	1.00[EUR][1000 genomes]
rs11217400	1.00[EUR][1000 genomes]
rs11217401	1.00[EUR][1000 genomes]
rs11217403	1.00[EUR][1000 genomes]
rs11217406	1.00[EUR][1000 genomes]
rs11217409	1.00[EUR][1000 genomes]
rs11217425	1.00[EUR][1000 genomes]
rs11217485	1.00[EUR][1000 genomes]
rs11217498	1.00[EUR][1000 genomes]
rs11600941	1.00[EUR][1000 genomes]
rs11822242	1.00[EUR][1000 genomes]
rs12279707	1.00[EUR][1000 genomes]
rs12281756	1.00[EUR][1000 genomes]
rs4424680	1.00[EUR][1000 genomes]
rs57088022	1.00[EUR][1000 genomes]
rs59997117	1.00[EUR][1000 genomes]
rs60295158	1.00[EUR][1000 genomes]
rs73575046	1.00[EUR][1000 genomes]
rs7927749	1.00[EUR][1000 genomes]
rs7936254	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898421	chr11:119499014-119631325	Enhancers Flanking Bivalent TSS/Enh Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv898423	chr11:119541332-119659753	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1051769	chr11:119572865-119630769	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1037739	chr11:119592989-119630641	Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:119601200-119612000	Weak transcription	Esophagus	oesophagus
2	chr11:119601200-119612200	Weak transcription	Right Atrium	heart
3	chr11:119601400-119612200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr11:119601400-119612200	Weak transcription	HMEC	breast
5	chr11:119601600-119610600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr11:119601600-119612000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr11:119601600-119612000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr11:119601600-119612200	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr11:119601800-119612000	Weak transcription	Spleen	Spleen
10	chr11:119601800-119612200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr11:119601800-119612200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr11:119605400-119612200	Enhancers	Fetal Intestine Small	intestine
13	chr11:119607600-119611400	Enhancers	Fetal Intestine Large	intestine
14	chr11:119608200-119611800	Enhancers	Colonic Mucosa	Colon
15	chr11:119609000-119610400	Weak transcription	Small Intestine	intestine
16	chr11:119609000-119610800	Enhancers	Fetal Kidney	kidney
17	chr11:119609000-119611600	Enhancers	Stomach Mucosa	stomach
18	chr11:119609000-119612000	Weak transcription	Fetal Brain Female	brain
19	chr11:119609200-119612600	Enhancers	Duodenum Mucosa	Duodenum
20	chr11:119609400-119610600	Enhancers	Fetal Stomach	stomach
21	chr11:119609600-119610400	Enhancers	Fetal Lung	lung
22	chr11:119609800-119611000	Bivalent Enhancer	HepG2	liver
23	chr11:119609800-119613600	Enhancers	Pancreas	Pancrea
24	chr11:119610000-119610400	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr11:119610000-119610400	Enhancers	Placenta	Placenta
26	chr11:119610000-119610600	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr11:119610000-119610600	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
28	chr11:119610000-119611800	Enhancers	Brain Cingulate Gyrus	brain
29	chr11:119610000-119612000	Enhancers	Breast Myoepithelial Primary Cells	Breast
30	chr11:119610200-119610400	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
31	chr11:119610200-119610600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
32	chr11:119610200-119611200	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon

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