Variant report

Variant	rs35244551
Chromosome Location	chr12:122416064-122416065
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	chr12:122415297..122419092-chr12:122458561..122460890,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-BCL7A-3	chr12:122416025-122416306	l_748_chr12:122413669-122416306_testes

Variant related genes	Relation type
ENSG00000110987	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10840631	0.80[AMR][1000 genomes]
rs10840632	0.80[AMR][1000 genomes]
rs10840633	0.80[AMR][1000 genomes]
rs10840637	0.81[AMR][1000 genomes]
rs11043251	0.80[AMR][1000 genomes]
rs11043271	0.84[AMR][1000 genomes]
rs11043278	0.86[AMR][1000 genomes]
rs11043280	0.81[AMR][1000 genomes]
rs11612028	0.84[AMR][1000 genomes]
rs12369331	0.81[AMR][1000 genomes]
rs12822775	0.82[AMR][1000 genomes]
rs12824593	0.80[AMR][1000 genomes]
rs34159444	0.85[AMR][1000 genomes]
rs9739381	0.82[AMR][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	nsv529868	chr12:121956483-122944265	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases
2	nsv916686	chr12:122240149-122714056	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
3	nsv899568	chr12:122254713-122456524	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	esv34001	chr12:122298737-122521637	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:122394000-122429800	Weak transcription	Brain Cingulate Gyrus	brain
2	chr12:122396600-122439200	Weak transcription	Brain Anterior Caudate	brain
3	chr12:122403400-122417200	Weak transcription	NHDF-Ad	bronchial
4	chr12:122406200-122416800	Weak transcription	K562	blood
5	chr12:122406600-122418200	Weak transcription	Osteobl	bone
6	chr12:122409800-122427200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr12:122409800-122428400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr12:122409800-122428400	Weak transcription	NHEK	skin
9	chr12:122410000-122428600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr12:122411400-122416800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr12:122411400-122418000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr12:122411600-122418200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr12:122411600-122418400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr12:122412800-122430600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr12:122413000-122417000	Weak transcription	Fetal Thymus	thymus
16	chr12:122413000-122417600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr12:122413200-122417000	Weak transcription	Thymus	Thymus
18	chr12:122413200-122417800	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr12:122413200-122418000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr12:122413200-122428800	Weak transcription	HSMMtube	muscle
21	chr12:122413400-122417200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr12:122414600-122416600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr12:122415200-122434800	Weak transcription	Pancreas	Pancrea
24	chr12:122415400-122428400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links