Variant report

Variant	rs17577540
Chromosome Location	chr3:25216312-25216313
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs12152294	0.92[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17517413	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17517455	1.00[AMR][1000 genomes]
rs17517778	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17517875	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17518622	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs17576595	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs17576629	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17576864	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17577191	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs55750806	1.00[AMR][1000 genomes]
rs55809331	1.00[AFR][1000 genomes]
rs55864034	1.00[AFR][1000 genomes]
rs56034169	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs56127830	1.00[AFR][1000 genomes]
rs56150061	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs73042334	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs73042350	1.00[AFR][1000 genomes]
rs73042352	1.00[AFR][1000 genomes]
rs73044253	1.00[AFR][1000 genomes]
rs73044255	1.00[AFR][1000 genomes]
rs73044259	1.00[AFR][1000 genomes]
rs73044279	1.00[AFR][1000 genomes]
rs73044296	1.00[AFR][1000 genomes]
rs73048410	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs73048413	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs73048430	0.83[AMR][1000 genomes]
rs73048442	0.87[AMR][1000 genomes]
rs73048447	1.00[AMR][1000 genomes]
rs73048450	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73049954	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs73049956	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs73050322	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73050329	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73050336	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73050338	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73050339	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73050340	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73050349	0.92[AMR][1000 genomes]
rs73050358	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs73050366	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73050373	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs73052497	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs73054326	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73054328	1.00[AFR][1000 genomes];0.84[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	nsv1013446	chr3:25176609-25221334	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv876631	chr3:25185448-25231571	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv949035	chr3:25194301-26084890	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	68 gene(s)	inside rSNPs	diseases
4	nsv508213	chr3:25206150-25326196	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:25211800-25216800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:25212800-25216400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr3:25213600-25218800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr3:25214000-25218000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr3:25215000-25217400	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr3:25215600-25216800	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:25215600-25217200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:25216000-25216400	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr3:25216000-25216400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr3:25216000-25218000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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