Variant report

Variant	rs4609784
Chromosome Location	chr15:59836165-59836166
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	chr15:59833463..59836271-chr15:59979637..59981674,2	K562	blood:
2	chr15:59834211..59836892-chr15:59948449..59950575,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM81A-1	chr15:59835922-59836323	NONHSAT044174

Variant related genes	Relation type
ENSG00000259238	Chromatin interaction
ENSG00000140307	Chromatin interaction
ENSG00000140299	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11633493	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12442882	1.00[AFR][1000 genomes]
rs12908797	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12913497	1.00[EUR][1000 genomes]
rs34056506	1.00[AFR][1000 genomes]
rs34140704	1.00[AFR][1000 genomes]
rs34206618	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34805018	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35195175	1.00[AFR][1000 genomes]
rs35478253	1.00[EUR][1000 genomes]
rs35631395	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][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	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv1044442	chr15:59765724-59955587	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv542403	chr15:59765724-59955587	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv904279	chr15:59791666-59842927	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59833000-59836400	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr15:59835400-59836400	Flanking Active TSS	GM12878-XiMat	blood
3	chr15:59835400-59837400	Enhancers	Primary B cells from peripheral blood	blood
4	chr15:59835400-59844200	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr15:59835600-59836200	Enhancers	Colonic Mucosa	Colon
6	chr15:59835600-59836800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr15:59835600-59836800	Enhancers	Fetal Intestine Small	intestine
8	chr15:59835600-59836800	Enhancers	Spleen	Spleen
9	chr15:59835600-59837000	Enhancers	Primary hematopoietic stem cells	blood
10	chr15:59835600-59837400	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr15:59835600-59838000	Bivalent Enhancer	HepG2	liver
12	chr15:59835800-59836400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
13	chr15:59835800-59836400	Enhancers	A549	lung
14	chr15:59835800-59837200	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr15:59835800-59837200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr15:59836000-59836200	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
17	chr15:59836000-59836400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr15:59836000-59836400	Flanking Active TSS	Primary B cells from cord blood	blood
19	chr15:59836000-59836400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr15:59836000-59836400	Flanking Active TSS	Duodenum Mucosa	Duodenum
21	chr15:59836000-59836400	Flanking Active TSS	Hela-S3	cervix
22	chr15:59836000-59836400	Enhancers	HMEC	breast
23	chr15:59836000-59836400	Flanking Active TSS	K562	blood
24	chr15:59836000-59836600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
25	chr15:59836000-59836800	Enhancers	Sigmoid Colon	Sigmoid Colon
26	chr15:59836000-59838800	Enhancers	Stomach Mucosa	stomach

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