Variant report

Variant	rs927520
Chromosome Location	chr9:14347235-14347236
allele	A/C
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	CTBP2	chr9:14346816-14350234	H1-hESC	embryonic stem cell:	n/a	n/a
2	POLR2A	chr9:14346137-14347762	H1-neurons	neurons:	n/a	n/a
3	SUZ12	chr9:14344009-14351112	NT2-D1	testis:	n/a	n/a
4	SIN3A	chr9:14345434-14350297	H1-hESC	embryonic stem cell:	n/a	chr9:14347438-14347447 chr9:14348586-14348595 chr9:14347099-14347108 chr9:14348579-14348592
5	E2F6	chr9:14347015-14348410	A549	lung:	n/a	chr9:14347246-14347258
6	MAX	chr9:14347158-14348294	H1-hESC	embryonic stem cell:	n/a	chr9:14347241-14347251 chr9:14347956-14347971 chr9:14347244-14347254 chr9:14347961-14347968 chr9:14347960-14347969 chr9:14347959-14347970 chr9:14347960-14347970 chr9:14347937-14347944
7	MAX	chr9:14347113-14348723	A549	lung:	n/a	chr9:14347241-14347251 chr9:14347956-14347971 chr9:14347244-14347254 chr9:14347961-14347968 chr9:14347960-14347969 chr9:14347959-14347970 chr9:14347960-14347970 chr9:14347937-14347944
8	MAX	chr9:14347150-14348354	ECC-1	luminal epithelium:	n/a	chr9:14347241-14347251 chr9:14347956-14347971 chr9:14347244-14347254 chr9:14347961-14347968 chr9:14347960-14347969 chr9:14347959-14347970 chr9:14347960-14347970 chr9:14347937-14347944
9	E2F6	chr9:14347033-14348267	H1-hESC	embryonic stem cell:	n/a	chr9:14347246-14347258
10	MAX	chr9:14347120-14348335	H1-hESC	embryonic stem cell:	n/a	chr9:14347241-14347251 chr9:14347956-14347971 chr9:14347244-14347254 chr9:14347961-14347968 chr9:14347960-14347969 chr9:14347959-14347970 chr9:14347960-14347970 chr9:14347937-14347944
11	E2F6	chr9:14345336-14349202	H1-hESC	embryonic stem cell:	n/a	chr9:14348935-14348947 chr9:14347246-14347258
12	YY1	chr9:14347087-14347779	H1-hESC	embryonic stem cell:	n/a	chr9:14347436-14347450
13	RAD21	chr9:14347210-14347746	H1-hESC	embryonic stem cell:	n/a	chr9:14347436-14347450 chr9:14347295-14347305
14	CHD2	chr9:14346836-14348140	H1-hESC	embryonic stem cell:	n/a	n/a
15	BACH1	chr9:14346878-14349315	H1-hESC	embryonic stem cell:	n/a	n/a
16	POLR2A	chr9:14344417-14347484	H1-neurons	neurons:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C9orf146-2	chr9:14347151-14347907	NONHSAT130245

Variant related genes	Relation type
ENSG00000225472	TF binding region

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10119216	0.81[EUR][1000 genomes]
rs12338722	0.84[CEU][hapmap];0.88[CHB][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12343468	0.82[EUR][1000 genomes]
rs13289560	0.84[ASN][1000 genomes]
rs13289800	0.85[ASN][1000 genomes]
rs7870860	0.84[CEU][hapmap];0.88[CHB][hapmap];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs877570	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs877571	0.89[ASN][1000 genomes]

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	nsv1029491	chr9:14033607-14942373	Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers 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	nsv915804	chr9:14182608-14903050	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv916811	chr9:14210978-14542068	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv831516	chr9:14280695-14437445	Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv892599	chr9:14310504-14350469	Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv523410	chr9:14344888-14348563	Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv527980	chr9:14345605-14348563	Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr9:14343800-14350800	Active TSS	Brain Inferior Temporal Lobe	brain
2	chr9:14343800-14351000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
3	chr9:14344000-14348600	Active TSS	H9 Cell Line	embryonic stem cell
4	chr9:14344000-14349200	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
5	chr9:14344200-14348200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
6	chr9:14344600-14350800	Active TSS	Breast Myoepithelial Primary Cells	Breast
7	chr9:14345000-14349000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
8	chr9:14345000-14349000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
9	chr9:14345400-14347800	Bivalent/Poised TSS	Brain Angular Gyrus	brain
10	chr9:14345400-14350000	Bivalent/Poised TSS	Brain Dorsolateral Prefrontal Cortex	brain
11	chr9:14345600-14347600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr9:14345600-14347600	Bivalent Enhancer	Stomach Mucosa	stomach
13	chr9:14345600-14347800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr9:14345600-14347800	Bivalent/Poised TSS	Brain Anterior Caudate	brain
15	chr9:14345600-14349000	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
16	chr9:14345600-14351000	Active TSS	Right Atrium	heart
17	chr9:14345800-14347400	Bivalent Enhancer	Primary hematopoietic stem cells	blood
18	chr9:14345800-14347600	Bivalent Enhancer	Primary hematopoietic stem cells short term culture	blood
19	chr9:14345800-14347800	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
20	chr9:14345800-14348000	Active TSS	Skeletal Muscle Male	skeletal muscle
21	chr9:14345800-14348200	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr9:14345800-14349000	Bivalent Enhancer	Fetal Thymus	thymus
23	chr9:14345800-14350000	Flanking Bivalent TSS/Enh	Duodenum Mucosa	Duodenum
24	chr9:14345800-14350200	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
25	chr9:14346000-14347400	Enhancers	Gastric	stomach
26	chr9:14346000-14348200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
27	chr9:14346000-14348200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
28	chr9:14346000-14348400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr9:14346000-14349000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
30	chr9:14346000-14350000	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
31	chr9:14346200-14348000	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr9:14346200-14350400	Active TSS	Brain Substantia Nigra	brain
33	chr9:14346200-14350800	Active TSS	Brain Hippocampus Middle	brain
34	chr9:14346400-14347400	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr9:14346400-14347400	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr9:14346400-14347800	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
37	chr9:14346400-14348400	Bivalent/Poised TSS	Pancreatic Islets	Pancreatic Islet
38	chr9:14346400-14349400	Active TSS	Esophagus	oesophagus
39	chr9:14346600-14347400	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr9:14346600-14347400	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr9:14346600-14348000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr9:14346600-14348000	Bivalent/Poised TSS	NHLF	lung
43	chr9:14346600-14348200	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon
44	chr9:14346600-14349000	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
45	chr9:14346600-14350000	Flanking Bivalent TSS/Enh	Colon Smooth Muscle	Colon
46	chr9:14346600-14350600	Flanking Bivalent TSS/Enh	NHEK	skin
47	chr9:14346600-14350800	Active TSS	Psoas Muscle	Psoas
48	chr9:14346800-14347600	Flanking Active TSS	Pancreas	Pancrea
49	chr9:14346800-14347800	Bivalent Enhancer	Spleen	Spleen
50	chr9:14346800-14348600	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links