Variant report

Variant	rs1743958
Chromosome Location	chr6:134513398-134513399
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	chr6:134494670..134496213-chr6:134512364..134514214,2	K562	blood:
2	chr6:134495471..134497320-chr6:134511912..134514651,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000118515	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1628660	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1743959	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6920460	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9373085	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9389148	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv492292	chr6:134464255-135028540	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
2	nsv1026369	chr6:134468470-135122264	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
3	nsv538444	chr6:134468470-135122264	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
4	nsv1018677	chr6:134512542-134638259	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv538445	chr6:134512542-134638259	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1023931	chr6:134512542-134668702	Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv538446	chr6:134512542-134668702	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:134499800-134523200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:134505200-134516400	Weak transcription	Fetal Intestine Small	intestine
3	chr6:134506600-134522800	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr6:134508000-134518000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr6:134508800-134515000	Weak transcription	Brain Anterior Caudate	brain
6	chr6:134509000-134514400	Weak transcription	Brain Hippocampus Middle	brain
7	chr6:134509000-134537800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:134509200-134513800	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr6:134509200-134516400	Weak transcription	Brain Cingulate Gyrus	brain
10	chr6:134509200-134516400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr6:134509200-134520000	Weak transcription	Pancreas	Pancrea
12	chr6:134509400-134518000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr6:134509600-134516400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr6:134511600-134515400	Weak transcription	Fetal Intestine Large	intestine
15	chr6:134511600-134522800	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr6:134512000-134514600	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr6:134512600-134513800	Weak transcription	K562	blood
18	chr6:134512600-134514400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr6:134512600-134514600	Weak transcription	Brain Angular Gyrus	brain
20	chr6:134512600-134515000	Weak transcription	Brain Substantia Nigra	brain
21	chr6:134512600-134517600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr6:134512600-134521000	Weak transcription	Primary T cells from cord blood	blood
23	chr6:134512800-134516200	Weak transcription	Fetal Heart	heart
24	chr6:134513000-134513400	Weak transcription	HepG2	liver
25	chr6:134513200-134514600	Enhancers	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links