Variant report

Variant	rs13397898
Chromosome Location	chr2:21477504-21477505
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	chr12:98650231..98653086-chr2:21476515..21478101,2	MCF-7	breast:
2	chr2:21476934..21479840-chr2:21484756..21486875,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10169543	1.00[ASN][1000 genomes]
rs10193924	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10204476	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10205003	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10221768	1.00[ASN][1000 genomes]
rs10221876	1.00[ASN][1000 genomes]
rs11897480	1.00[ASN][1000 genomes]
rs12712923	1.00[ASN][1000 genomes]
rs12712940	1.00[ASN][1000 genomes]
rs13419611	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17041988	1.00[ASN][1000 genomes]
rs17042000	1.00[ASN][1000 genomes]
rs1878512	1.00[ASN][1000 genomes]
rs34002646	1.00[ASN][1000 genomes]
rs34125138	1.00[ASN][1000 genomes]
rs36047821	1.00[ASN][1000 genomes]
rs365946	1.00[ASN][1000 genomes]
rs367162	1.00[ASN][1000 genomes]
rs380240	1.00[ASN][1000 genomes]
rs403880	1.00[ASN][1000 genomes]
rs428696	1.00[ASN][1000 genomes]
rs431493	1.00[ASN][1000 genomes]
rs432483	1.00[ASN][1000 genomes]
rs4505563	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4514902	0.92[EUR][1000 genomes]
rs453862	1.00[ASN][1000 genomes]
rs4542883	1.00[ASN][1000 genomes]
rs4542884	1.00[ASN][1000 genomes]
rs4596008	1.00[ASN][1000 genomes]
rs539845	1.00[ASN][1000 genomes]
rs66774912	1.00[ASN][1000 genomes]
rs67599264	1.00[ASN][1000 genomes]
rs7578527	1.00[ASN][1000 genomes]
rs7578637	1.00[EUR][1000 genomes];1.00[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	nsv519215	chr2:21473751-21502727	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a
2	nsv1011486	chr2:21475803-22364002	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv535602	chr2:21475803-22364002	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:21462200-21480800	Weak transcription	Aorta	Aorta
2	chr2:21473200-21488800	Enhancers	Brain Hippocampus Middle	brain
3	chr2:21473600-21487400	Enhancers	Brain Cingulate Gyrus	brain
4	chr2:21473800-21478000	Enhancers	Brain Germinal Matrix	brain
5	chr2:21474600-21478000	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr2:21474600-21478800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:21474800-21477800	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr2:21475000-21478800	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr2:21475000-21479000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr2:21475200-21478000	Weak transcription	Adipose Nuclei	Adipose
11	chr2:21475200-21481000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr2:21475200-21484600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr2:21475800-21478800	Enhancers	Brain Substantia Nigra	brain
14	chr2:21475800-21481000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr2:21476000-21479200	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr2:21476000-21479800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr2:21476000-21488000	Enhancers	Brain Anterior Caudate	brain
18	chr2:21476200-21477600	Weak transcription	K562	blood
19	chr2:21476200-21479800	Enhancers	Brain Angular Gyrus	brain
20	chr2:21476400-21479600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr2:21476400-21482000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
22	chr2:21476800-21478000	Enhancers	Cortex derived primary cultured neurospheres	brain
23	chr2:21477200-21477800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr2:21477200-21477800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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