Variant report

Variant	rs58842477
Chromosome Location	chr7:27461845-27461846
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:27384042..27388224-chr7:27459528..27463800,5	MCF-7	breast:
2	chr7:27457673..27459494-chr7:27461716..27463972,3	MCF-7	breast:
3	chr7:27461567..27463754-chr7:27531036..27533117,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000235574	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10232941	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10252971	0.85[ASN][1000 genomes]
rs10268859	0.97[ASN][1000 genomes]
rs1076210	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10951165	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11563380	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11563567	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11978918	0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12666726	0.82[EUR][1000 genomes]
rs12667419	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12667457	1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12668112	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12668753	0.82[EUR][1000 genomes]
rs12668786	0.82[EUR][1000 genomes]
rs12668981	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12672272	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12673629	0.83[EUR][1000 genomes]
rs17155267	0.83[EUR][1000 genomes]
rs17429641	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17429648	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17439221	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17439235	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17439374	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1985529	0.87[EUR][1000 genomes]
rs2074336	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2074337	0.85[ASN][1000 genomes]
rs2074338	0.85[ASN][1000 genomes]
rs2893286	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4298409	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4470906	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4529360	0.88[ASN][1000 genomes]
rs4719891	0.81[ASN][1000 genomes]
rs56294122	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs57356952	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6953463	0.83[ASN][1000 genomes]
rs6957441	0.85[ASN][1000 genomes]
rs6957649	0.85[ASN][1000 genomes]
rs6966735	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72595217	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72595220	1.00[EUR][1000 genomes]
rs7790517	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7798437	0.86[ASN][1000 genomes]
rs929242	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs929243	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531024	chr7:27194426-27461954	Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	148 gene(s)	inside rSNPs	diseases
2	nsv830930	chr7:27395838-27587355	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:27458600-27462600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr7:27458800-27463200	Weak transcription	Spleen	Spleen
3	chr7:27458800-27464000	Weak transcription	HUVEC	blood vessel
4	chr7:27459200-27464600	Weak transcription	Pancreas	Pancrea
5	chr7:27460600-27463200	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr7:27460800-27463600	Weak transcription	Fetal Intestine Small	intestine
7	chr7:27461200-27462200	Weak transcription	Colonic Mucosa	Colon
8	chr7:27461200-27463200	Weak transcription	Duodenum Mucosa	Duodenum
9	chr7:27461400-27463000	Weak transcription	Gastric	stomach
10	chr7:27461800-27464000	Enhancers	Sigmoid Colon	Sigmoid Colon
11	chr7:27461800-27464600	Enhancers	Rectal Mucosa Donor 29	rectum
12	chr7:27461800-27465200	Enhancers	Stomach Mucosa	stomach

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