Variant report

Variant	rs72906778
Chromosome Location	chr2:54349002-54349003
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:8)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:8 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TEAD4	chr2:54348801-54350541	HepG2	liver:	n/a	n/a
2	FOXA1	chr2:54348698-54349728	HepG2	liver:	n/a	n/a
3	NFIC	chr2:54348878-54350049	HepG2	liver:	n/a	n/a
4	MYBL2	chr2:54348879-54349988	HepG2	liver:	n/a	n/a
5	ARID3A	chr2:54348943-54349803	HepG2	liver:	n/a	n/a
6	FOXA2	chr2:54348414-54350521	HepG2	liver:	n/a	n/a
7	NFIC	chr2:54348862-54349882	HepG2	liver:	n/a	n/a
8	EP300	chr2:54348918-54349794	HepG2	liver:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:54341216..54345253-chr2:54347980..54351307,5	MCF-7	breast:
2	chr2:54341176..54344555-chr2:54346430..54350020,7	K562	blood:
3	chr2:54341176..54343229-chr2:54346629..54349067,2	K562	blood:
4	chr2:54195752..54197966-chr2:54347709..54349839,3	K562	blood:

No data

Variant related genes	Relation type
ACYP2	TF binding region
ENSG00000068878	Chromatin interaction
ENSG00000170634	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10169755	0.80[AFR][1000 genomes]
rs10181332	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10190353	0.81[EUR][1000 genomes]
rs10193846	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10199041	1.00[ASN][1000 genomes]
rs10207892	1.00[ASN][1000 genomes]
rs11125521	0.82[AFR][1000 genomes]
rs11682807	0.80[AFR][1000 genomes]
rs11884327	1.00[ASN][1000 genomes]
rs11884857	0.89[EUR][1000 genomes]
rs11887593	0.92[EUR][1000 genomes]
rs11896279	1.00[ASN][1000 genomes]
rs13390377	1.00[ASN][1000 genomes]
rs13401491	0.89[EUR][1000 genomes]
rs13401548	1.00[ASN][1000 genomes]
rs13404903	1.00[ASN][1000 genomes]
rs2112120	0.87[EUR][1000 genomes]
rs2161083	0.87[EUR][1000 genomes]
rs58920915	0.87[EUR][1000 genomes]
rs60776154	0.89[EUR][1000 genomes]
rs6545382	0.89[EUR][1000 genomes]
rs6719990	0.89[EUR][1000 genomes]
rs6742557	1.00[ASN][1000 genomes]
rs6748686	0.89[EUR][1000 genomes]
rs72906704	0.89[EUR][1000 genomes]
rs72906711	0.89[EUR][1000 genomes]
rs72906714	0.89[EUR][1000 genomes]
rs72906786	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72906787	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7556936	0.89[EUR][1000 genomes]
rs7583508	0.89[EUR][1000 genomes]
rs7588134	0.82[EUR][1000 genomes]
rs7588319	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001246	chr2:54195654-54434832	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
2	nsv1003205	chr2:54220049-54700843	Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	esv2762639	chr2:54220049-54700855	Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1011790	chr2:54220049-54714553	Flanking Active TSS ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	nsv1002891	chr2:54227005-54682169	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
6	nsv535722	chr2:54227005-54682169	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	nsv1011690	chr2:54255361-54700843	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
8	nsv431069	chr2:54260132-54434049	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
9	esv1851003	chr2:54324701-54372931	Genic enhancers Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases
10	nsv1007731	chr2:54331179-54452329	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
11	nsv535723	chr2:54331179-54452329	Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
12	nsv961690	chr2:54339295-54359290	Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases
13	nsv1006984	chr2:54343466-54384094	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
14	nsv874148	chr2:54344325-54432222	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
15	nsv1000652	chr2:54345892-54469703	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
16	nsv1003889	chr2:54347750-54424601	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
17	nsv582011	chr2:54348704-54384927	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS 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:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:54343200-54350600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr2:54343400-54349400	Weak transcription	Psoas Muscle	Psoas
3	chr2:54343400-54349600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr2:54343400-54351000	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr2:54343400-54353000	Weak transcription	Fetal Lung	lung
6	chr2:54343400-54388600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr2:54343600-54349400	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr2:54343600-54350000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr2:54343600-54350600	Weak transcription	Brain Cingulate Gyrus	brain
10	chr2:54343800-54349400	Weak transcription	Fetal Heart	heart
11	chr2:54343800-54355800	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr2:54344000-54349800	Weak transcription	Primary T cells from cord blood	blood
13	chr2:54344000-54349800	Weak transcription	Hela-S3	cervix
14	chr2:54347000-54349400	ZNF genes & repeats	Primary B cells from cord blood	blood
15	chr2:54347400-54349200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
16	chr2:54347800-54350000	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr2:54348200-54350000	Weak transcription	Aorta	Aorta
18	chr2:54348200-54350200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr2:54348200-54353600	Weak transcription	Brain Substantia Nigra	brain
20	chr2:54348400-54349200	Weak transcription	HSMM	muscle
21	chr2:54348400-54349600	Enhancers	Skeletal Muscle Male	skeletal muscle
22	chr2:54348400-54350000	Enhancers	HMEC	breast
23	chr2:54348400-54350200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr2:54348400-54350400	Weak transcription	Right Atrium	heart
25	chr2:54348400-54351200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
26	chr2:54348400-54361800	Weak transcription	Brain Anterior Caudate	brain
27	chr2:54348600-54349400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr2:54348600-54349400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr2:54348600-54349400	Weak transcription	Fetal Muscle Leg	muscle
30	chr2:54348600-54349800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr2:54348600-54349800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr2:54348600-54349800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr2:54348600-54350000	Weak transcription	Adipose Nuclei	Adipose
34	chr2:54348600-54350000	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr2:54348600-54350800	Weak transcription	Right Ventricle	heart
36	chr2:54348600-54362200	Weak transcription	Liver	Liver
37	chr2:54348600-54365800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr2:54348600-54365800	Weak transcription	Left Ventricle	heart
39	chr2:54348800-54350400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr2:54348800-54350400	Flanking Active TSS	HepG2	liver
41	chr2:54348800-54362000	Weak transcription	Brain Hippocampus Middle	brain
42	chr2:54349000-54349400	Enhancers	Osteobl	bone
43	chr2:54349000-54349600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr2:54349000-54349800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr2:54349000-54349800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr2:54349000-54349800	Genic enhancers	HSMMtube	muscle
47	chr2:54349000-54350000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr2:54349000-54350000	Enhancers	Skeletal Muscle Female	skeletal muscle
49	chr2:54349000-54350000	Enhancers	NHDF-Ad	bronchial
50	chr2:54349000-54350200	Enhancers	ES-WA7 Cell Line	embryonic stem cell

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