Variant report

Variant	rs560661535
Chromosome Location	chr4:93224722-93224723
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	SIN3AK20	chr4:93224718-93225064	H1-hESC	embryonic stem cell:	n/a	n/a
2	CTCF	chr4:93224700-93224850	MCF-7	breast:	n/a	n/a
3	CTCF	chr4:93224700-93224850	AoAF	blood vessel:	n/a	n/a
4	CTCF	chr4:93224680-93224830	HEK293	kidney:	n/a	n/a
5	CTCF	chr4:93224720-93224870	HMF	breast:	n/a	n/a
6	CTCF	chr4:93224680-93224830	AG04450	lung:	n/a	n/a
7	REST	chr4:93223600-93227920	H1-neurons	neurons:	n/a	chr4:93226854-93226864 chr4:93225065-93225078 chr4:93226409-93226422 chr4:93226881-93226888
8	YY1	chr4:93224712-93225159	H1-hESC	embryonic stem cell:	n/a	chr4:93225037-93225051 chr4:93225064-93225078 chr4:93225094-93225103
9	POLR2A	chr4:93224616-93227654	H1-neurons	neurons:	n/a	n/a
10	TAF1	chr4:93224712-93225160	H1-hESC	embryonic stem cell:	n/a	n/a
11	RAD21	chr4:93224598-93225314	H1-hESC	embryonic stem cell:	n/a	n/a
12	CTCF	chr4:93224720-93224870	HRPEpiC	eye:	n/a	n/a
13	CTCF	chr4:93224720-93224870	MCF-7	breast:	n/a	n/a
14	MAX	chr4:93224691-93225290	H1-hESC	embryonic stem cell:	n/a	chr4:93225095-93225105 chr4:93225248-93225258
15	CTCF	chr4:93224660-93224810	AG04450	lung:	n/a	n/a
16	CTCF	chr4:93224716-93224990	H1-hESC	embryonic stem cell:	n/a	n/a
17	GATA3	chr4:93224598-93224768	SH-SY5Y	brain:	n/a	n/a
18	SIN3A	chr4:93224656-93227528	H1-hESC	embryonic stem cell:	n/a	chr4:93224964-93224973
19	POLR2A	chr4:93224667-93225341	H1-neurons	neurons:	n/a	n/a
20	KAP1	chr4:93224676-93225044	U2OS	brain:	n/a	n/a
21	CTCF	chr4:93224700-93224850	BE2_C	brain:	n/a	n/a
22	SIN3AK20	chr4:93224711-93225114	H1-hESC	embryonic stem cell:	n/a	n/a
23	ZNF263	chr4:93224654-93225247	HEK293-T-REx	kidney:	n/a	chr4:93224839-93224848 chr4:93224840-93224861

Variant related genes	Relation type
GRID2	TF binding region

Extended variants
information (count: 14 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530154	chr4:92396539-93359983	Enhancers Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv999701	chr4:92518040-93233556	Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv537180	chr4:92518040-93233556	Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv1009960	chr4:92747531-93389054	Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv470056	chr4:92837584-93322977	Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv461587	chr4:92837584-93376231	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv594866	chr4:92837584-93376231	Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv948712	chr4:93007985-93740409	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv879603	chr4:93053028-93276174	ZNF genes & repeats Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv879604	chr4:93064187-93287744	Flanking Active TSS Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv830007	chr4:93101912-93317656	Bivalent/Poised TSS Enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
12	nsv594868	chr4:93190198-93391251	Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv998246	chr4:93198845-93350325	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
14	esv1835393	chr4:93222515-93276174	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:93223800-93224800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:93224000-93224800	Weak transcription	Brain Substantia Nigra	brain
3	chr4:93224000-93228600	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr4:93224200-93225400	Active TSS	iPS-20b Cell Line	embryonic stem cell
5	chr4:93224200-93227800	Active TSS	HUES48 Cell Line	embryonic stem cell
6	chr4:93224400-93224800	Flanking Bivalent TSS/Enh	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr4:93224400-93224800	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
8	chr4:93224400-93224800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
9	chr4:93224400-93224800	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
10	chr4:93224400-93224800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr4:93224400-93224800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
12	chr4:93224400-93224800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr4:93224400-93225000	Active TSS	H1 Cell Line	embryonic stem cell
14	chr4:93224400-93225600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr4:93224400-93226200	Active TSS	Fetal Brain Female	brain
16	chr4:93224400-93228400	Active TSS	Brain Inferior Temporal Lobe	brain
17	chr4:93224400-93229200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
18	chr4:93224600-93224800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr4:93224600-93224800	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:93224600-93224800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr4:93224600-93224800	Flanking Bivalent TSS/Enh	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr4:93224600-93224800	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
23	chr4:93224600-93224800	Bivalent/Poised TSS	Primary hematopoietic stem cells	blood
24	chr4:93224600-93224800	Flanking Active TSS	Brain Angular Gyrus	brain
25	chr4:93224600-93224800	Flanking Active TSS	Brain Hippocampus Middle	brain
26	chr4:93224600-93224800	Bivalent Enhancer	Fetal Heart	heart
27	chr4:93224600-93224800	Bivalent Enhancer	Fetal Kidney	kidney
28	chr4:93224600-93224800	Bivalent Enhancer	Fetal Stomach	stomach
29	chr4:93224600-93225000	Flanking Active TSS	Brain Germinal Matrix	brain
30	chr4:93224600-93225600	Bivalent/Poised TSS	Fetal Lung	lung
31	chr4:93224600-93226600	Flanking Bivalent TSS/Enh	Duodenum Smooth Muscle	Duodenum
32	chr4:93224600-93227600	Active TSS	H9 Cell Line	embryonic stem cell
33	chr4:93224600-93227600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
34	chr4:93224600-93227800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
35	chr4:93224600-93229600	Active TSS	Brain Cingulate Gyrus	brain
36	chr4:93224600-93229800	Active TSS	Brain Anterior Caudate	brain

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