Variant report

Variant	rs2409036
Chromosome Location	chr5:127252958-127252959
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:127251045..127254184-chr5:127417608..127420984,3	MCF-7	breast:
2	chr5:127252681..127255660-chr5:127418721..127420702,2	K562	blood:
3	chr5:127252558..127255088-chr5:127415960..127418621,2	MCF-7	breast:
4	chr5:127247758..127249668-chr5:127252486..127255400,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000064651	Chromatin interaction
ENSG00000245937	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10052229	0.90[CHB][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs10477678	0.90[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs12654649	0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs17164505	0.90[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs17164626	0.82[AMR][1000 genomes]
rs2176831	0.85[CHB][hapmap]
rs2263502	0.89[ASN][1000 genomes]
rs2409034	0.90[CHB][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.94[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2409035	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2681509	0.89[ASN][1000 genomes]
rs4835933	0.90[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4836341	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs4836343	0.90[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs56806325	0.89[ASN][1000 genomes]
rs6865186	0.89[ASN][1000 genomes]
rs6898966	0.90[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs73331900	0.89[ASN][1000 genomes]
rs7711172	0.89[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	nsv1033607	chr5:126385181-127304459	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv1021483	chr5:126927834-127304873	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv3399613	chr5:127252795-127253059	Flanking Active TSS Enhancers Active TSS Weak transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:127252400-127253000	Enhancers	Fetal Intestine Large	intestine
2	chr5:127252400-127253000	Enhancers	Fetal Intestine Small	intestine
3	chr5:127252400-127253200	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr5:127252400-127253200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr5:127252400-127253200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr5:127252400-127253200	Flanking Active TSS	Duodenum Mucosa	Duodenum
7	chr5:127252400-127253200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr5:127252400-127253400	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr5:127252400-127253800	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr5:127252600-127253000	Enhancers	Primary T cells fromperipheralblood	blood
11	chr5:127252600-127253000	Active TSS	Primary hematopoietic stem cells	blood
12	chr5:127252600-127253000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
13	chr5:127252600-127253000	Active TSS	Duodenum Smooth Muscle	Duodenum
14	chr5:127252600-127253000	Active TSS	Rectal Mucosa Donor 29	rectum
15	chr5:127252600-127253000	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
16	chr5:127252600-127253600	Enhancers	Primary B cells from peripheral blood	blood
17	chr5:127252600-127253600	Enhancers	GM12878-XiMat	blood
18	chr5:127252600-127253600	Enhancers	Monocytes-CD14+_RO01746	blood
19	chr5:127252800-127253200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr5:127252800-127253200	Active TSS	Ovary	ovary
21	chr5:127252800-127253200	Flanking Active TSS	Stomach Mucosa	stomach
22	chr5:127252800-127253400	Weak transcription	Small Intestine	intestine
23	chr5:127252800-127253800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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