Variant report

Variant	rs7899139
Chromosome Location	chr10:116165124-116165125
allele	A/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	MAX	chr10:116163846-116165241	ECC-1	luminal epithelium:	n/a	chr10:116164186-116164196
2	SIN3AK20	chr10:116163136-116165160	PANC-1	pancreas:	n/a	n/a
3	YY1	chr10:116164021-116165241	ECC-1	luminal epithelium:	n/a	chr10:116164334-116164348 chr10:116164031-116164045 chr10:116164840-116164851
4	TAF1	chr10:116163098-116165238	ECC-1	luminal epithelium:	n/a	n/a
5	MAX	chr10:116163776-116165277	ECC-1	luminal epithelium:	n/a	chr10:116164186-116164196
6	POLR2A	chr10:116163901-116165197	ECC-1	luminal epithelium:	n/a	n/a
7	NFIC	chr10:116163233-116165383	ECC-1	luminal epithelium:	n/a	n/a
8	NFIC	chr10:116163037-116165318	ECC-1	luminal epithelium:	n/a	n/a
9	TAF1	chr10:116163153-116165189	ECC-1	luminal epithelium:	n/a	n/a
10	TCF12	chr10:116163103-116165257	ECC-1	luminal epithelium:	n/a	n/a
11	POLR2A	chr10:116163927-116165324	PANC-1	pancreas:	n/a	n/a
12	ZBTB7A	chr10:116162400-116165242	ECC-1	luminal epithelium:	n/a	n/a
13	RAD21	chr10:116164005-116165258	ECC-1	luminal epithelium:	n/a	chr10:116164765-116164777 chr10:116164132-116164144
14	EP300	chr10:116163038-116165394	ECC-1	luminal epithelium:	n/a	chr10:116164340-116164349 chr10:116163158-116163171 chr10:116163076-116163090 chr10:116164156-116164169
15	MAX	chr10:116163252-116165241	A549	lung:	n/a	chr10:116164186-116164196
16	MAX	chr10:116163868-116165192	A549	lung:	n/a	chr10:116164186-116164196
17	EP300	chr10:116164630-116165153	A549	lung:	n/a	n/a
18	YY1	chr10:116164013-116165230	ECC-1	luminal epithelium:	n/a	chr10:116164334-116164348 chr10:116164031-116164045 chr10:116164840-116164851
19	TEAD4	chr10:116163913-116165244	ECC-1	luminal epithelium:	n/a	n/a
20	TCF12	chr10:116162987-116165339	ECC-1	luminal epithelium:	n/a	n/a
21	POLR2A	chr10:116163914-116165479	PANC-1	pancreas:	n/a	n/a

Variant related genes	Relation type
AFAP1L2	TF binding region

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10736236	0.84[CEU][hapmap]
rs11196730	0.85[CEU][hapmap]
rs475150	0.84[JPT][hapmap]
rs61868314	0.98[ASN][1000 genomes]
rs622646	0.83[JPT][hapmap]
rs7069926	0.84[JPT][hapmap]
rs7910088	0.84[JPT][hapmap]
rs7916374	0.84[JPT][hapmap]
rs941855	0.83[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	esv3340687	chr10:116162987-116165535	Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116162200-116165200	Active TSS	Rectal Smooth Muscle	rectum
2	chr10:116162400-116165200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
3	chr10:116162600-116165400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
4	chr10:116162600-116165600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
5	chr10:116162800-116165200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
6	chr10:116162800-116165200	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
7	chr10:116163200-116165200	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
8	chr10:116163200-116165400	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
9	chr10:116163800-116165200	Active TSS	Placenta Amnion	Placenta Amnion
10	chr10:116163800-116165200	Active TSS	Rectal Mucosa Donor 29	rectum
11	chr10:116164200-116165200	Active TSS	Rectal Mucosa Donor 31	rectum
12	chr10:116164600-116165200	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
13	chr10:116164600-116165200	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr10:116164600-116165400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr10:116164600-116165400	Flanking Active TSS	HMEC	breast
16	chr10:116164800-116165200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr10:116164800-116165200	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
18	chr10:116164800-116165200	Bivalent Enhancer	Placenta	Placenta
19	chr10:116164800-116165200	Enhancers	Left Ventricle	heart
20	chr10:116164800-116165200	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon
21	chr10:116164800-116165200	Active TSS	Stomach Smooth Muscle	stomach
22	chr10:116164800-116165400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr10:116164800-116165400	Flanking Active TSS	A549	lung
24	chr10:116164800-116165400	Flanking Active TSS	NHEK	skin
25	chr10:116165000-116165200	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
26	chr10:116165000-116165200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr10:116165000-116165200	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
28	chr10:116165000-116165200	Flanking Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr10:116165000-116165200	Bivalent Enhancer	Adipose Nuclei	Adipose
30	chr10:116165000-116165200	Enhancers	Brain Angular Gyrus	brain
31	chr10:116165000-116165200	Active TSS	Duodenum Mucosa	Duodenum
32	chr10:116165000-116165200	Bivalent Enhancer	Fetal Stomach	stomach
33	chr10:116165000-116165200	Enhancers	Spleen	Spleen
34	chr10:116165000-116165400	Bivalent/Poised TSS	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr10:116165000-116165400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
36	chr10:116165000-116165400	Bivalent Enhancer	Fetal Muscle Leg	muscle
37	chr10:116165000-116165600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr10:116165000-116172000	Weak transcription	Esophagus	oesophagus
39	chr10:116165000-116172600	Weak transcription	Pancreas	Pancrea

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