Variant report

Variant	rs534740078
Chromosome Location	chr9:96718288-96718289
allele	C/G
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	MYC	chr9:96718258-96718312	MCF-7	breast:	n/a	n/a
2	ZBTB7A	chr9:96717542-96718338	ECC-1	luminal epithelium:	n/a	chr9:96717635-96717644
3	POLR2A	chr9:96716169-96718368	Hela-S3	cervix:	n/a	n/a
4	MAX	chr9:96717625-96718311	ECC-1	luminal epithelium:	n/a	chr9:96718083-96718093 chr9:96717947-96717956
5	POLR2A	chr9:96717779-96718291	H1-neurons	neurons:	n/a	n/a
6	ZBTB7A	chr9:96717532-96718337	ECC-1	luminal epithelium:	n/a	chr9:96717635-96717644
7	CTBP2	chr9:96717720-96718392	H1-hESC	embryonic stem cell:	n/a	n/a
8	MAX	chr9:96717509-96718383	A549	lung:	n/a	chr9:96718083-96718093 chr9:96717947-96717956
9	SUZ12	chr9:96717789-96718414	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:96709646..96715968-chr9:96715980..96721050,10	MCF-7	breast:
2	chr9:96713619..96716485-chr9:96717370..96719166,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PTPDC1-1	chr9:96718116-96719150	XLOC_007466

Variant related genes	Relation type
BARX1	TF binding region
ENSG00000131668	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:5 , 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	nsv824993	chr9:96699362-96725105	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv893590	chr9:96701287-96729129	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv3442102	chr9:96716156-96718704	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv3412213	chr9:96716656-96718704	Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96713800-96718400	Bivalent Enhancer	Lung	lung
2	chr9:96715000-96718800	Bivalent Enhancer	Spleen	Spleen
3	chr9:96716400-96718400	Active TSS	Hela-S3	cervix
4	chr9:96716400-96718600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
5	chr9:96716400-96718600	Bivalent/Poised TSS	Fetal Stomach	stomach
6	chr9:96716400-96718800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
7	chr9:96716800-96718400	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
8	chr9:96716800-96718400	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
9	chr9:96716800-96718400	Active TSS	A549	lung
10	chr9:96717000-96718400	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
11	chr9:96717000-96718800	Bivalent/Poised TSS	Primary T cells from cord blood	blood
12	chr9:96717000-96719200	Active TSS	Stomach Smooth Muscle	stomach
13	chr9:96717600-96718400	Bivalent/Poised TSS	HSMM	muscle
14	chr9:96717800-96718400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
15	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
16	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	Breast Myoepithelial Primary Cells	Breast
18	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	Primary B cells from cord blood	blood
19	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	Primary T helper naive cells fromperipheralblood	blood
20	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr9:96717800-96718400	Bivalent Enhancer	Brain Angular Gyrus	brain
24	chr9:96717800-96718400	Bivalent/Poised TSS	Brain Anterior Caudate	brain
25	chr9:96717800-96718400	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
26	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	Duodenum Smooth Muscle	Duodenum
27	chr9:96717800-96718400	Bivalent Enhancer	Fetal Brain Male	brain
28	chr9:96717800-96718400	Bivalent Enhancer	Fetal Heart	heart
29	chr9:96717800-96718400	Bivalent Enhancer	Fetal Intestine Small	intestine
30	chr9:96717800-96718400	Bivalent Enhancer	Fetal Thymus	thymus
31	chr9:96717800-96718400	Bivalent Enhancer	Left Ventricle	heart
32	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	Right Ventricle	heart
33	chr9:96717800-96718400	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon
34	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
35	chr9:96717800-96718400	Flanking Bivalent TSS/Enh	HMEC	breast
36	chr9:96717800-96718600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
37	chr9:96717800-96718600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
38	chr9:96717800-96718600	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
39	chr9:96717800-96718600	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr9:96717800-96718600	Bivalent Enhancer	Placenta	Placenta
41	chr9:96718000-96718400	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr9:96718000-96718400	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr9:96718000-96718400	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
44	chr9:96718000-96718400	Bivalent/Poised TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr9:96718000-96718400	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
46	chr9:96718000-96718400	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
47	chr9:96718000-96718400	Bivalent Enhancer	Liver	Liver
48	chr9:96718000-96718400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
49	chr9:96718000-96718400	Bivalent Enhancer	Fetal Lung	lung
50	chr9:96718000-96718400	Flanking Bivalent TSS/Enh	Rectal Smooth Muscle	rectum

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