Variant report

Variant	rs16825324
Chromosome Location	chr3:155419238-155419239
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:155406187..155408621-chr3:155417875..155419444,2	K562	blood:
2	chr3:155099375..155100930-chr3:155418818..155420546,12	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs2435194	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2680881	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2680882	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs358704	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs358706	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs358707	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs358708	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs358709	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs358710	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs358711	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs358712	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs358913	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs370157	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs378905	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs384412	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs387885	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs392521	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs393081	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs394419	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs394440	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs397231	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs402201	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs407217	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs412002	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs412664	0.81[ASN][1000 genomes]
rs414126	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs421072	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs426069	0.81[ASN][1000 genomes]
rs429143	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs430008	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs446716	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs447359	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs447751	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs448062	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7428196	0.83[EUR][1000 genomes]
rs7644902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[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	nsv1009618	chr3:155370034-155492177	Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv829763	chr3:155417552-155470079	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155399800-155422000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:155400600-155421000	Weak transcription	Fetal Intestine Small	intestine
3	chr3:155409000-155419400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr3:155409200-155422200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr3:155411000-155420600	Weak transcription	Fetal Intestine Large	intestine
6	chr3:155412600-155422400	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr3:155412600-155437400	Weak transcription	Pancreas	Pancrea
8	chr3:155413800-155432000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr3:155414000-155420600	Weak transcription	Brain Germinal Matrix	brain
10	chr3:155415000-155421200	Weak transcription	Stomach Mucosa	stomach
11	chr3:155415600-155421400	Weak transcription	Brain Hippocampus Middle	brain
12	chr3:155417400-155421600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:155417800-155419400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr3:155418000-155421600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr3:155418400-155420200	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr3:155418600-155420200	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr3:155418600-155420200	Enhancers	A549	lung
18	chr3:155418600-155421200	Genic enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:155418800-155419600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr3:155418800-155423400	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr3:155418800-155423400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr3:155419000-155419600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr3:155419000-155419800	Enhancers	Pancreatic Islets	Pancreatic Islet
24	chr3:155419000-155420200	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr3:155419200-155419400	Enhancers	Brain Anterior Caudate	brain
26	chr3:155419200-155419600	Enhancers	Rectal Smooth Muscle	rectum
27	chr3:155419200-155419800	Enhancers	Brain Angular Gyrus	brain
28	chr3:155419200-155420400	Enhancers	HUES64 Cell Line	embryonic stem cell
29	chr3:155419200-155423600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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