Variant report

Variant	rs540507904
Chromosome Location	chr9:97871417-97871418
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr9:97871279-97871419	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:97870812..97875678-chr9:97877049..97880671,6	MCF-7	breast:
2	chr9:97441040..97444032-chr9:97871150..97872660,2	MCF-7	breast:
3	chr9:97867543..97869380-chr9:97871265..97873952,2	MCF-7	breast:
4	chr9:97681719..97684667-chr9:97870774..97872478,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000229065	TF binding region
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
2	nsv1038106	chr9:97793038-97881416	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
3	nsv1038523	chr9:97797032-97923774	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
4	nsv540175	chr9:97797032-97923774	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
5	nsv831656	chr9:97831551-97989980	Weak transcription Strong transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
6	esv3521722	chr9:97870450-97872469	Enhancers Strong transcription Weak transcription Genic enhancers	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	esv3521723	chr9:97870450-97872469	Strong transcription Genic enhancers Enhancers Weak transcription	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97813000-97873000	Weak transcription	K562	blood
2	chr9:97820600-97875000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr9:97844000-97898400	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr9:97846200-97880000	Weak transcription	Primary B cells from cord blood	blood
5	chr9:97847600-97878400	Weak transcription	Dnd41	blood
6	chr9:97855200-97876800	Weak transcription	GM12878-XiMat	blood
7	chr9:97855400-97884800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr9:97855600-97876400	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr9:97855600-97878600	Weak transcription	Stomach Mucosa	stomach
10	chr9:97856200-97872600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr9:97858600-97877200	Strong transcription	Fetal Intestine Large	intestine
12	chr9:97858600-97878400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr9:97860000-97875600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr9:97860400-97879000	Strong transcription	Liver	Liver
15	chr9:97861200-97877200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr9:97861200-97889800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr9:97862800-97874000	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr9:97863200-97875600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr9:97863400-97874800	Weak transcription	Primary hematopoietic stem cells	blood
20	chr9:97863600-97883600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr9:97864000-97877800	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr9:97865200-97876800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr9:97865200-97877200	Weak transcription	Small Intestine	intestine
24	chr9:97865600-97883600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr9:97865800-97877600	Strong transcription	Fetal Intestine Small	intestine
26	chr9:97866000-97883400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr9:97866000-97889600	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr9:97866200-97889600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr9:97866400-97875200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr9:97866400-97886600	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr9:97866600-97873600	Genic enhancers	Skeletal Muscle Male	skeletal muscle
32	chr9:97867000-97873000	Strong transcription	Fetal Stomach	stomach
33	chr9:97867000-97878800	Weak transcription	Right Atrium	heart
34	chr9:97867800-97877000	Strong transcription	Primary T cells from cord blood	blood
35	chr9:97868000-97871600	Enhancers	Brain Hippocampus Middle	brain
36	chr9:97868000-97873000	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr9:97868200-97873600	Genic enhancers	Skeletal Muscle Female	skeletal muscle
38	chr9:97868600-97889400	Weak transcription	Fetal Heart	heart
39	chr9:97869000-97871600	Weak transcription	Fetal Lung	lung
40	chr9:97869000-97872200	Genic enhancers	Fetal Muscle Leg	muscle
41	chr9:97869000-97875400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr9:97869400-97872600	Strong transcription	Sigmoid Colon	Sigmoid Colon
43	chr9:97869400-97874800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr9:97869400-97875800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr9:97869400-97876000	Strong transcription	Lung	lung
46	chr9:97869600-97871600	Weak transcription	Placenta	Placenta
47	chr9:97869600-97871800	Weak transcription	Duodenum Mucosa	Duodenum
48	chr9:97869600-97871800	Weak transcription	Left Ventricle	heart
49	chr9:97869600-97871800	Weak transcription	NHEK	skin
50	chr9:97869600-97873200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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