Variant report

Variant	rs2885836
Chromosome Location	chr3:25195123-25195124
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs2043619	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2043620	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2363595	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2649616	0.83[AFR][1000 genomes]
rs2649619	0.86[AFR][1000 genomes]
rs321521	0.89[AFR][1000 genomes]
rs321524	0.86[AFR][1000 genomes]
rs321537	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs321540	0.85[AFR][1000 genomes]
rs321543	0.80[LWK][hapmap]
rs4258924	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6550953	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6793141	0.84[AFR][1000 genomes]
rs6796899	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs904593	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs978142	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:25191400-25195200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:25192800-25197600	Weak transcription	Brain Angular Gyrus	brain
3	chr3:25192800-25198200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr3:25192800-25198200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr3:25193200-25196200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:25193400-25197200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr3:25193400-25197200	Weak transcription	NH-A	brain
8	chr3:25193400-25197600	Weak transcription	Brain Anterior Caudate	brain
9	chr3:25193400-25197800	Weak transcription	Fetal Stomach	stomach
10	chr3:25193400-25197800	Weak transcription	Rectal Smooth Muscle	rectum
11	chr3:25193600-25197000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr3:25193600-25197200	Weak transcription	Fetal Muscle Leg	muscle
13	chr3:25193600-25197400	Weak transcription	NHDF-Ad	bronchial
14	chr3:25193600-25197600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr3:25193800-25196800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr3:25193800-25197200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr3:25193800-25197400	Weak transcription	Osteobl	bone
18	chr3:25194000-25197400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:25194000-25197600	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr3:25194000-25197600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr3:25194000-25211800	Weak transcription	Aorta	Aorta
22	chr3:25194400-25195400	Enhancers	Fetal Lung	lung
23	chr3:25194400-25196200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr3:25194600-25195600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr3:25194600-25195600	Enhancers	HUES64 Cell Line	embryonic stem cell
26	chr3:25194600-25195600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr3:25194600-25195600	Enhancers	Brain Inferior Temporal Lobe	brain
28	chr3:25194600-25195600	Enhancers	Brain Substantia Nigra	brain
29	chr3:25194600-25196600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr3:25194600-25196800	Enhancers	iPS-20b Cell Line	embryonic stem cell
31	chr3:25194600-25197400	Enhancers	H1 Cell Line	embryonic stem cell
32	chr3:25194800-25195200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr3:25194800-25195400	Enhancers	HMEC	breast
34	chr3:25194800-25196000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr3:25194800-25196000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr3:25194800-25196000	Weak transcription	Right Atrium	heart
37	chr3:25194800-25197000	Enhancers	HUES48 Cell Line	embryonic stem cell
38	chr3:25194800-25197400	Enhancers	HUES6 Cell Line	embryonic stem cell
39	chr3:25194800-25198200	Weak transcription	Fetal Heart	heart
40	chr3:25195000-25195400	Weak transcription	HUVEC	blood vessel
41	chr3:25195000-25197400	Weak transcription	Brain Hippocampus Middle	brain
42	chr3:25195000-25198800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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