Variant report

Variant	rs12904145
Chromosome Location	chr15:57608311-57608312
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	chr15:57601950..57604007-chr15:57607354..57609319,2	K562	blood:
2	chr15:57606730..57608501-chr15:57611304..57613052,2	K562	blood:

Variant related genes	Relation type
ENSG00000260172	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10152785	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11071311	0.96[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11631073	0.87[CEU][hapmap]
rs11855537	0.97[AFR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12905158	0.88[CEU][hapmap];0.86[EUR][1000 genomes]
rs12913286	0.97[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12917506	0.80[JPT][hapmap]
rs17820184	1.00[CEU][hapmap];0.84[CHB][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2243504	0.82[AMR][1000 genomes]
rs2414501	0.91[CEU][hapmap];0.86[AFR][1000 genomes]
rs2431018	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs2544131	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2544132	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2591053	0.84[EUR][1000 genomes]
rs2591054	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs2909548	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4774923	0.85[CEU][hapmap]
rs4774924	0.96[CEU][hapmap];0.84[CHB][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4774925	0.84[CEU][hapmap]
rs4774926	0.88[CEU][hapmap];0.84[CHB][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4774927	0.96[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4774928	0.97[AFR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61999614	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7170975	0.80[CEU][hapmap]
rs8027325	0.84[EUR][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	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv833021	chr15:57495413-57751366	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv1054547	chr15:57600488-57977659	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57599400-57612800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr15:57599600-57612400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:57599600-57612800	Weak transcription	GM12878-XiMat	blood
4	chr15:57599600-57614200	Weak transcription	Small Intestine	intestine
5	chr15:57599600-57617800	Weak transcription	Spleen	Spleen
6	chr15:57602800-57617000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr15:57603200-57611400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr15:57604200-57612800	Weak transcription	Primary B cells from cord blood	blood
9	chr15:57605000-57619400	Weak transcription	Pancreas	Pancrea
10	chr15:57605600-57611000	Weak transcription	Primary B cells from peripheral blood	blood
11	chr15:57605600-57611800	Weak transcription	Fetal Stomach	stomach
12	chr15:57605600-57612400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr15:57605600-57612400	Weak transcription	Fetal Brain Male	brain
14	chr15:57605600-57612800	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr15:57605600-57614400	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr15:57606400-57611200	Weak transcription	Fetal Muscle Trunk	muscle
17	chr15:57606800-57611000	Weak transcription	Fetal Intestine Large	intestine

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