Variant report

Variant	rs9396556
Chromosome Location	chr6:15076769-15076770
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15070190..15074230-chr6:15074491..15076843,3	MCF-7	breast:
2	chr6:15074695..15078360-chr6:15082005..15084184,3	MCF-7	breast:
3	chr6:15065231..15078374-chr6:15243362..15252213,26	MCF-7	breast:
4	chr6:15071613..15074171-chr6:15076318..15078190,2	K562	blood:
5	chr6:15076508..15078945-chr6:15079653..15081556,2	K562	blood:
6	chr6:15062917..15066512-chr6:15075789..15079596,4	K562	blood:
7	chr6:15069299..15075541-chr6:15075577..15080851,9	K562	blood:

Variant related genes	Relation type
ENSG00000271888	Chromatin interaction
ENSG00000008083	Chromatin interaction
ENSG00000235488	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs16876061	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6928159	1.00[CEU][hapmap];0.88[AMR][1000 genomes]
rs6928936	1.00[CEU][hapmap];0.88[AMR][1000 genomes]
rs72832873	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72832876	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72832881	0.88[AMR][1000 genomes]
rs72832884	0.82[AMR][1000 genomes]
rs72832887	0.88[AMR][1000 genomes]
rs72832892	0.88[AMR][1000 genomes]
rs7767571	0.88[AMR][1000 genomes]
rs9349965	1.00[CEU][hapmap];0.88[AMR][1000 genomes]
rs9358050	0.90[CEU][hapmap];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9367860	0.88[AMR][1000 genomes]
rs9370791	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9383017	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9383020	0.88[AMR][1000 genomes]
rs9383022	0.88[AMR][1000 genomes]
rs9383024	0.88[AMR][1000 genomes]
rs9396553	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9396554	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9396555	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9396557	0.88[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883454	chr6:15009137-15081252	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv830593	chr6:15049636-15244190	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15043800-15077400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:15068800-15077200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:15073800-15079600	Weak transcription	Stomach Mucosa	stomach
4	chr6:15074000-15076800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr6:15074000-15077400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:15074600-15078000	Weak transcription	Thymus	Thymus
7	chr6:15074800-15080000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:15075200-15078000	Enhancers	Placenta	Placenta
9	chr6:15075400-15078200	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr6:15076200-15079000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:15076200-15079000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:15076200-15080200	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr6:15076400-15076800	Enhancers	Right Atrium	heart
14	chr6:15076400-15076800	Enhancers	K562	blood
15	chr6:15076400-15077000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:15076400-15079800	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr6:15076400-15080600	Enhancers	H9 Cell Line	embryonic stem cell
18	chr6:15076600-15076800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
19	chr6:15076600-15076800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr6:15076600-15076800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:15076600-15076800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr6:15076600-15076800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr6:15076600-15076800	Enhancers	Fetal Muscle Trunk	muscle
24	chr6:15076600-15077000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr6:15076600-15077000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr6:15076600-15077000	Weak transcription	GM12878-XiMat	blood
27	chr6:15076600-15077600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr6:15076600-15079000	Enhancers	iPS-20b Cell Line	embryonic stem cell
29	chr6:15076600-15079600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:15076600-15079800	Enhancers	HUES48 Cell Line	embryonic stem cell
31	chr6:15076600-15080200	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr6:15076600-15080200	Enhancers	H1 Cell Line	embryonic stem cell
33	chr6:15076600-15080200	Enhancers	HUES64 Cell Line	embryonic stem cell

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