Variant report

Variant	rs12439826
Chromosome Location	chr15:92523478-92523479
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	chr15:92515850..92520116-chr15:92521478..92524897,5	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10454699	0.94[ASN][1000 genomes]
rs10852165	0.81[ASN][1000 genomes]
rs10852166	0.82[ASN][1000 genomes]
rs11635055	0.96[ASN][1000 genomes]
rs12901238	0.93[ASN][1000 genomes]
rs12902685	0.93[ASN][1000 genomes]
rs12905744	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12909480	0.96[ASN][1000 genomes]
rs12910715	0.96[ASN][1000 genomes]
rs12910862	0.99[ASN][1000 genomes]
rs12916491	0.96[ASN][1000 genomes]
rs1356417	0.94[ASN][1000 genomes]
rs1400783	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1568210	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16946157	0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs16946164	0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs16946168	0.82[ASN][1000 genomes]
rs2138849	0.93[ASN][1000 genomes]
rs2176452	0.88[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs28470895	0.86[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs35973922	0.97[ASN][1000 genomes]
rs4312282	0.96[ASN][1000 genomes]
rs4932592	0.98[ASN][1000 genomes]
rs4932593	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs62009549	0.95[ASN][1000 genomes]
rs7165760	0.81[ASN][1000 genomes]
rs7171921	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7172099	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7172159	0.82[ASN][1000 genomes]
rs7178673	0.83[ASN][1000 genomes]
rs7178734	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7179815	0.82[ASN][1000 genomes]
rs8025507	0.80[ASN][1000 genomes]
rs8040046	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs953888	0.95[ASN][1000 genomes]
rs976216	0.94[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	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv534110	chr15:92397220-92592961	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92498200-92555000	Weak transcription	Gastric	stomach
2	chr15:92518000-92524400	Weak transcription	Spleen	Spleen
3	chr15:92518200-92526000	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr15:92518800-92523800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr15:92518800-92524400	Weak transcription	Ovary	ovary
6	chr15:92518800-92525000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr15:92519000-92525000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr15:92519000-92529000	Weak transcription	Brain Angular Gyrus	brain
9	chr15:92519200-92523800	Weak transcription	Psoas Muscle	Psoas
10	chr15:92519200-92524000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr15:92519200-92524000	Weak transcription	Fetal Muscle Trunk	muscle
12	chr15:92519200-92525000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr15:92519200-92525000	Weak transcription	Esophagus	oesophagus
14	chr15:92522600-92524200	Enhancers	Brain Anterior Caudate	brain
15	chr15:92522600-92524400	Enhancers	Brain Substantia Nigra	brain
16	chr15:92522800-92525200	Enhancers	Brain Hippocampus Middle	brain
17	chr15:92523000-92524000	Flanking Active TSS	Fetal Heart	heart
18	chr15:92523000-92526200	Enhancers	Right Ventricle	heart
19	chr15:92523000-92526200	Enhancers	HSMMtube	muscle
20	chr15:92523200-92524600	Enhancers	Brain Cingulate Gyrus	brain
21	chr15:92523200-92524600	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr15:92523200-92524800	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr15:92523200-92525000	Enhancers	Fetal Muscle Leg	muscle
24	chr15:92523200-92525200	Enhancers	Aorta	Aorta
25	chr15:92523200-92525400	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr15:92523200-92525600	Enhancers	Lung	lung
27	chr15:92523200-92526200	Enhancers	Left Ventricle	heart
28	chr15:92523400-92523800	Weak transcription	Right Atrium	heart

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