Variant report

Variant	rs28665340
Chromosome Location	chr9:96674757-96674758
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96673909..96678084-chr9:96678410..96682250,3	K562	blood:
2	chr9:96673253..96675820-chr9:96696121..96697775,2	MCF-7	breast:
3	chr9:96673666..96675915-chr9:96927652..96930442,2	MCF-7	breast:
4	chr9:96671304..96672841-chr9:96674548..96676141,2	MCF-7	breast:
5	chr9:96672307..96674659-chr9:96674694..96676957,2	MCF-7	breast:
6	chr9:96674702..96676543-chr9:96724873..96726532,2	K562	blood:
7	chr9:96669941..96671466-chr9:96672760..96674877,2	K562	blood:

Variant related genes	Relation type
ENSG00000269946	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12346731	1.00[AMR][1000 genomes]
rs28395503	1.00[AMR][1000 genomes]
rs7046370	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893589	chr9:96624645-96884544	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1053137	chr9:96644876-96683214	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv1046904	chr9:96647940-96689327	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv1035418	chr9:96647940-96711409	Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Active TSS Strong transcription	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	esv1801607	chr9:96657324-96683214	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv1042043	chr9:96657324-96689327	Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96671000-96675400	Bivalent Enhancer	Fetal Stomach	stomach
2	chr9:96671400-96679600	Weak transcription	Gastric	stomach
3	chr9:96671800-96674800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr9:96672000-96674800	Weak transcription	Primary B cells from peripheral blood	blood
5	chr9:96673400-96675200	Flanking Active TSS	Stomach Smooth Muscle	stomach
6	chr9:96673600-96674800	Enhancers	Fetal Brain Male	brain
7	chr9:96673600-96675200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr9:96673600-96675200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr9:96673600-96675200	Enhancers	Esophagus	oesophagus
10	chr9:96674000-96675600	Enhancers	Stomach Mucosa	stomach
11	chr9:96674200-96675200	Enhancers	H1 Cell Line	embryonic stem cell
12	chr9:96674200-96675200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr9:96674200-96675200	Enhancers	Fetal Heart	heart
14	chr9:96674200-96675200	Bivalent Enhancer	NHEK	skin
15	chr9:96674200-96675400	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr9:96674400-96674800	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
17	chr9:96674400-96674800	Bivalent Enhancer	Fetal Muscle Leg	muscle
18	chr9:96674400-96675000	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr9:96674400-96675200	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr9:96674400-96675200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr9:96674400-96675200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr9:96674400-96675200	Bivalent Enhancer	Fetal Lung	lung
23	chr9:96674400-96675400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr9:96674400-96675400	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr9:96674600-96674800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
26	chr9:96674600-96675000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr9:96674600-96675000	Enhancers	Placenta Amnion	Placenta Amnion
28	chr9:96674600-96675200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
29	chr9:96674600-96675200	Enhancers	GM12878-XiMat	blood
30	chr9:96674600-96675400	Enhancers	HUES64 Cell Line	embryonic stem cell
31	chr9:96674600-96675400	Enhancers	iPS-15b Cell Line	embryonic stem cell
32	chr9:96674600-96675400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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