Variant report

Variant	rs74076836
Chromosome Location	chr1:62417745-62417746
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	JUND	chr1:62417331-62418151	H1-hESC	embryonic stem cell:	n/a	n/a
2	ATF2	chr1:62417577-62418091	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr1:62417722-62417801	MCF10A-Er-Src	breast:	n/a	n/a
4	POLR2A	chr1:62417154-62418295	H1-hESC	embryonic stem cell:	n/a	n/a
5	BACH1	chr1:62417538-62418004	H1-hESC	embryonic stem cell:	n/a	n/a
6	TBP	chr1:62417397-62418258	H1-hESC	embryonic stem cell:	n/a	n/a
7	CHD2	chr1:62417448-62418216	H1-hESC	embryonic stem cell:	n/a	n/a
8	REST	chr1:62417243-62418215	H1-neurons	neurons:	n/a	n/a
9	POLR2A	chr1:62417316-62418245	H1-hESC	embryonic stem cell:	n/a	n/a
10	POLR2A	chr1:62417345-62418284	H1-hESC	embryonic stem cell:	n/a	n/a
11	POLR2A	chr1:62417641-62417815	H1-hESC	embryonic stem cell:	n/a	n/a
12	POLR2A	chr1:62417499-62418140	H1-neurons	neurons:	n/a	n/a
13	CHD1	chr1:62417310-62417837	H1-hESC	embryonic stem cell:	n/a	n/a
14	TAF1	chr1:62417343-62418185	H1-hESC	embryonic stem cell:	n/a	n/a
15	MAFK	chr1:62417561-62418701	H1-hESC	embryonic stem cell:	n/a	chr1:62418546-62418557 chr1:62418542-62418557 chr1:62418546-62418557
16	SP1	chr1:62417112-62418337	H1-hESC	embryonic stem cell:	n/a	n/a
17	SIN3A	chr1:62417498-62418202	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
INADL	TF binding region

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

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12077526	0.83[AFR][1000 genomes]
rs12087264	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58785584	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv518627	chr1:62279594-62517947	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv522020	chr1:62279594-62517947	Active TSS ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv531876	chr1:62302313-62504349	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv1004446	chr1:62394631-62813533	Enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
5	nsv534984	chr1:62394631-62813533	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
6	nsv1110	chr1:62395723-62454435	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv546415	chr1:62405873-62437872	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1001667	chr1:62407786-62649838	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
9	nsv1011842	chr1:62414911-62428530	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:62350600-62428200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr1:62381200-62418400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr1:62385000-62494200	Weak transcription	Aorta	Aorta
4	chr1:62393800-62422400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr1:62396400-62418000	Weak transcription	Fetal Kidney	kidney
6	chr1:62406600-62430200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr1:62409000-62436800	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr1:62409200-62456000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr1:62409200-62456800	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr1:62409200-62457000	Weak transcription	Fetal Intestine Large	intestine
11	chr1:62409200-62518600	Weak transcription	Pancreas	Pancrea
12	chr1:62409400-62418000	Weak transcription	Left Ventricle	heart
13	chr1:62409400-62429600	Weak transcription	Gastric	stomach
14	chr1:62409400-62458400	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr1:62410200-62425200	Weak transcription	Fetal Intestine Small	intestine
16	chr1:62416000-62417800	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr1:62416000-62417800	Enhancers	H1 Cell Line	embryonic stem cell
18	chr1:62416000-62417800	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr1:62416200-62418000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr1:62416200-62418600	Enhancers	NHEK	skin
21	chr1:62416600-62417800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr1:62416600-62419200	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr1:62416600-62420000	Enhancers	iPS-15b Cell Line	embryonic stem cell
24	chr1:62416800-62419600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
25	chr1:62416800-62426800	Weak transcription	HepG2	liver
26	chr1:62417000-62418000	Enhancers	Skeletal Muscle Male	skeletal muscle
27	chr1:62417000-62418600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
28	chr1:62417000-62419200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
29	chr1:62417200-62418200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr1:62417200-62418200	Enhancers	Placenta Amnion	Placenta Amnion
31	chr1:62417200-62418400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr1:62417200-62418400	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
33	chr1:62417200-62418400	Enhancers	Cortex derived primary cultured neurospheres	brain
34	chr1:62417200-62418600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr1:62417200-62418600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
36	chr1:62417200-62418600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr1:62417200-62418800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr1:62417200-62418800	Enhancers	HMEC	breast
39	chr1:62417200-62419000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr1:62417400-62418400	Enhancers	Brain Hippocampus Middle	brain
41	chr1:62417400-62418600	Enhancers	Fetal Heart	heart
42	chr1:62417400-62418800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr1:62417400-62418800	Enhancers	NH-A	brain
44	chr1:62417400-62419000	Enhancers	Brain Germinal Matrix	brain
45	chr1:62417400-62419800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr1:62417600-62418000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr1:62417600-62418000	Active TSS	Brain Anterior Caudate	brain
48	chr1:62417600-62418000	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
49	chr1:62417600-62418200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr1:62417600-62418200	Enhancers	H9 Cell Line	embryonic stem cell

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