Variant report

Variant	rs3816544
Chromosome Location	chr15:51975758-51975759
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:51975005..51977651-chr15:51984880..51987418,3	K562	blood:
2	chr15:51968757..51971365-chr15:51975638..51977391,2	MCF-7	breast:
3	chr15:51974418..51976599-chr15:51979066..51980619,2	K562	blood:
4	chr15:51974117..51976857-chr15:51978812..51980643,2	MCF-7	breast:

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1010486	0.88[ASN][1000 genomes]
rs1017679	0.85[CHB][hapmap]
rs10519314	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10519315	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10519316	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10519318	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10519319	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10519320	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10519321	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1471072	0.85[CHB][hapmap]
rs16964465	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16964476	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17648565	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs17648801	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17705035	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs2124588	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2124589	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2124590	1.00[ASN][1000 genomes]
rs2305709	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2305711	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2305712	1.00[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs2305715	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2305719	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2622770	0.85[CHB][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs3214014	1.00[ASN][1000 genomes]
rs3764220	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3765067	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3809498	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs41286490	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs41286492	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs60337239	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60437890	1.00[ASN][1000 genomes]
rs60934476	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7163359	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs7174397	0.87[ASN][1000 genomes]
rs8023804	1.00[ASN][1000 genomes]
rs8032454	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471243	chr15:51345485-52018096	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv904219	chr15:51851999-51977159	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
3	nsv457139	chr15:51854718-51977159	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
4	nsv569407	chr15:51854718-51977159	Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
5	nsv1035967	chr15:51949866-52008736	Bivalent Enhancer Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51974200-51977200	Weak transcription	Brain Substantia Nigra	brain
2	chr15:51974200-52018800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:51974400-51983400	Weak transcription	Brain Hippocampus Middle	brain
4	chr15:51974400-51990800	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr15:51974400-52005200	Weak transcription	Brain Anterior Caudate	brain
6	chr15:51974600-51983000	Weak transcription	Brain Cingulate Gyrus	brain
7	chr15:51974600-51983200	Weak transcription	K562	blood
8	chr15:51974600-51984200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr15:51974600-51991000	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr15:51974600-52016400	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr15:51974800-51984600	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr15:51975000-51976400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr15:51975000-51980400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr15:51975000-51982600	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr15:51975000-51993200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr15:51975200-51998400	Weak transcription	Brain Angular Gyrus	brain
17	chr15:51975400-51977800	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr15:51975400-51979600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr15:51975600-51976000	Weak transcription	Fetal Brain Female	brain
20	chr15:51975600-51978600	Weak transcription	Brain Germinal Matrix	brain
21	chr15:51975600-51979800	Enhancers	Pancreatic Islets	Pancreatic Islet
22	chr15:51975600-52017200	Weak transcription	Fetal Brain Male	brain

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