Variant report

Variant	rs17576864
Chromosome Location	chr3:25192389-25192390
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	chr3:25187342..25189876-chr3:25191897..25194177,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs12152294	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17517413	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17517455	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17517778	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17517875	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17518622	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17576595	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17576629	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17577191	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17577540	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17578294	0.85[EUR][1000 genomes]
rs55750806	1.00[AMR][1000 genomes];0.93[EUR][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]
rs56127830	1.00[AFR][1000 genomes]
rs56150061	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56189892	0.93[EUR][1000 genomes]
rs57259009	0.87[EUR][1000 genomes]
rs73042334	1.00[AFR][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]
rs73048404	0.87[EUR][1000 genomes]
rs73048410	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73048413	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs73048430	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73048442	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73048447	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73048450	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs73049954	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73049956	1.00[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs73050322	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73050329	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73050336	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73050338	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73050339	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs73050340	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73050349	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73050358	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73050366	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73050373	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73052497	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73054309	0.80[EUR][1000 genomes]
rs73054326	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs73054328	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9840225	0.90[EUR][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	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17576864	ZNF385D	cis	parietal	SCAN

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:25190600-25194400	Weak transcription	Fetal Heart	heart
2	chr3:25190800-25193000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:25191000-25194400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr3:25191400-25194600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:25191400-25195200	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr3:25191800-25192600	Enhancers	iPS-20b Cell Line	embryonic stem cell
7	chr3:25191800-25192800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr3:25191800-25192800	Enhancers	Right Atrium	heart
9	chr3:25191800-25193200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr3:25191800-25193200	Enhancers	Fetal Muscle Leg	muscle
11	chr3:25191800-25193400	Enhancers	Fetal Stomach	stomach
12	chr3:25192000-25193800	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr3:25192200-25192800	Enhancers	HUVEC	blood vessel
14	chr3:25192200-25193000	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr3:25192200-25193400	Enhancers	Brain Germinal Matrix	brain
16	chr3:25192200-25193600	Enhancers	ES-I3 Cell Line	embryonic stem cell

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