Variant report

Variant	rs1554385
Chromosome Location	chr3:118220148-118220149
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs17676297	0.81[AMR][1000 genomes]
rs62275962	1.00[ASN][1000 genomes]
rs6780730	1.00[ASN][1000 genomes]
rs6808261	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	nsv460829	chr3:118195601-118229370	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv591349	chr3:118195601-118229370	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv829690	chr3:118205361-118378010	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv965435	chr3:118213069-118220612	Enhancers Weak transcription Flanking Active TSS	lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:118208400-118223400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:118218200-118222000	Enhancers	Brain Germinal Matrix	brain
3	chr3:118218800-118221600	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr3:118219400-118221000	Enhancers	Fetal Stomach	stomach
5	chr3:118219400-118221200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr3:118219400-118221800	Enhancers	Fetal Lung	lung
7	chr3:118219600-118221000	Enhancers	Rectal Smooth Muscle	rectum
8	chr3:118219600-118221200	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr3:118219600-118221200	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr3:118219600-118221200	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr3:118219600-118221200	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr3:118219600-118221800	Enhancers	Breast Myoepithelial Primary Cells	Breast
13	chr3:118219800-118220200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr3:118219800-118220200	Enhancers	Fetal Heart	heart
15	chr3:118219800-118220400	Enhancers	Brain Angular Gyrus	brain
16	chr3:118219800-118220400	Enhancers	Brain Cingulate Gyrus	brain
17	chr3:118219800-118220400	Flanking Active TSS	Stomach Smooth Muscle	stomach
18	chr3:118219800-118220600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr3:118219800-118221000	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr3:118219800-118221200	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr3:118220000-118220200	Flanking Active TSS	Colon Smooth Muscle	Colon
22	chr3:118220000-118220400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr3:118220000-118220400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr3:118220000-118220400	Enhancers	Adipose Nuclei	Adipose
25	chr3:118220000-118220400	Flanking Active TSS	Brain Hippocampus Middle	brain
26	chr3:118220000-118220400	Enhancers	Brain Inferior Temporal Lobe	brain
27	chr3:118220000-118220400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
28	chr3:118220000-118220400	Enhancers	Fetal Muscle Leg	muscle
29	chr3:118220000-118220400	Enhancers	Right Atrium	heart
30	chr3:118220000-118220800	Enhancers	Brain Anterior Caudate	brain
31	chr3:118220000-118220800	Enhancers	HMEC	breast
32	chr3:118220000-118221000	Enhancers	H1 Cell Line	embryonic stem cell
33	chr3:118220000-118221000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr3:118220000-118221000	Enhancers	Ovary	ovary
35	chr3:118220000-118221200	Enhancers	HUES6 Cell Line	embryonic stem cell
36	chr3:118220000-118222600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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