Variant report

Variant	rs552371954
Chromosome Location	chr1:57110805-57110806
allele	C/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	chr1:57110729-57111452	H1-hESC	embryonic stem cell:	n/a	n/a
2	MAX	chr1:57110497-57111689	ECC-1	luminal epithelium:	n/a	n/a
3	POLR2A	chr1:57110645-57111293	A549	lung:	n/a	n/a
4	POLR2A	chr1:57110725-57111142	HCT-116	colon:	n/a	n/a
5	POLR2A	chr1:57110720-57110952	MCF10A-Er-Src	breast:	n/a	n/a
6	POLR2A	chr1:57110566-57111250	HepG2	liver:	n/a	n/a
7	POLR2A	chr1:57110683-57111977	H1-hESC	embryonic stem cell:	n/a	n/a
8	ZBTB7A	chr1:57110789-57111030	HepG2	liver:	n/a	n/a
9	E2F6	chr1:57110344-57111389	H1-hESC	embryonic stem cell:	n/a	chr1:57111003-57111013 chr1:57111006-57111016 chr1:57111000-57111010
10	HEY1	chr1:57110671-57111206	HepG2	liver:	n/a	chr1:57111000-57111015 chr1:57110776-57110791 chr1:57110752-57110767
11	MAX	chr1:57110265-57111822	A549	lung:	n/a	n/a
12	CEBPD	chr1:57110799-57111044	HepG2	liver:	n/a	n/a
13	RCOR1	chr1:57110073-57112051	Hela-S3	cervix:	n/a	n/a
14	YY1	chr1:57110607-57111387	HepG2	liver:	n/a	chr1:57111002-57111016 chr1:57110999-57111008 chr1:57111003-57111014 chr1:57111056-57111068 chr1:57111002-57111011 chr1:57111005-57111014 chr1:57110698-57110707 chr1:57111050-57111070 chr1:57111000-57111011 chr1:57110999-57111013
15	MAZ	chr1:57109756-57111909	IMR90	lung:	n/a	n/a
16	TAF1	chr1:57110594-57111494	HepG2	liver:	n/a	n/a
17	E2F1	chr1:57110698-57111742	Hela-S3	cervix:	n/a	chr1:57111003-57111013 chr1:57111006-57111016 chr1:57111000-57111010
18	RAD21	chr1:57110726-57111136	H1-hESC	embryonic stem cell:	n/a	n/a
19	ZKSCAN1	chr1:57110701-57110892	Hela-S3	cervix:	n/a	n/a
20	CREB1	chr1:57110424-57111347	HepG2	liver:	n/a	n/a
21	POLR2A	chr1:57110447-57111768	HepG2	liver:	n/a	n/a
22	E2F6	chr1:57110703-57111394	H1-hESC	embryonic stem cell:	n/a	chr1:57111003-57111013 chr1:57111006-57111016 chr1:57111000-57111010
23	POLR2A	chr1:57110217-57111688	Hela-S3	cervix:	n/a	n/a
24	POLR2A	chr1:57110266-57111698	HEK293	kidney:	n/a	n/a
25	SIN3AK20	chr1:57110588-57110825	HepG2	liver:	n/a	n/a
26	ZBTB7A	chr1:57110575-57111113	HepG2	liver:	n/a	n/a
27	POLR2A	chr1:57110442-57111954	H1-hESC	embryonic stem cell:	n/a	n/a
28	POLR2A	chr1:57110619-57111238	HepG2	liver:	n/a	n/a
29	HEY1	chr1:57110531-57111547	HepG2	liver:	n/a	chr1:57111328-57111343 chr1:57110752-57110767 chr1:57111000-57111015 chr1:57110776-57110791
30	POLR2A	chr1:57110270-57111232	Hela-S3	cervix:	n/a	n/a
31	SMARCB1	chr1:57109860-57111913	Hela-S3	cervix:	n/a	n/a
32	MAX	chr1:57110405-57111800	HepG2	liver:	n/a	n/a
33	CTCF	chr1:57110740-57110890	HepG2	liver:	n/a	n/a
34	MAX	chr1:57110365-57111746	HepG2	liver:	n/a	n/a
35	POLR2A	chr1:57110645-57111242	HepG2	liver:	n/a	n/a
36	ZBTB7A	chr1:57110402-57111227	ECC-1	luminal epithelium:	n/a	n/a
37	MAX	chr1:57110715-57111234	HepG2	liver:	n/a	n/a
38	MAZ	chr1:57110438-57111236	HepG2	liver:	n/a	n/a
39	CHD2	chr1:57110314-57111134	Hela-S3	cervix:	n/a	n/a
40	POLR2A	chr1:57110614-57111433	A549	lung:	n/a	n/a
41	TCF12	chr1:57110340-57110899	A549	lung:	n/a	n/a
42	POLR2A	chr1:57110339-57111757	H1-neurons	neurons:	n/a	n/a
43	TAF1	chr1:57110469-57110891	H1-hESC	embryonic stem cell:	n/a	n/a
44	TAF1	chr1:57110605-57111490	ECC-1	luminal epithelium:	n/a	n/a
45	POLR2A	chr1:57110267-57111969	Hela-S3	cervix:	n/a	n/a
46	TCF12	chr1:57110493-57111307	ECC-1	luminal epithelium:	n/a	n/a
47	CTBP2	chr1:57110553-57111521	H1-hESC	embryonic stem cell:	n/a	n/a
48	POLR2A	chr1:57110620-57111156	A549	lung:	n/a	n/a
49	POLR2A	chr1:57110656-57111252	HepG2	liver:	n/a	n/a
50	MAX	chr1:57110595-57111802	ECC-1	luminal epithelium:	n/a	n/a

Variant related genes	Relation type
PRKAA2	TF binding region

Extended variants
information (count: 4 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv3371942	chr1:57109389-57112237	Flanking Active TSS Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv3402388	chr1:57109989-57112537	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	esv3445991	chr1:57110114-57112162	Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57109800-57111000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr1:57109800-57111200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr1:57109800-57111400	Bivalent/Poised TSS	Fetal Muscle Leg	muscle
4	chr1:57109800-57111600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr1:57109800-57111600	Active TSS	Rectal Mucosa Donor 29	rectum
6	chr1:57109800-57111800	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
7	chr1:57109800-57112000	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
8	chr1:57109800-57112000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
9	chr1:57109800-57112000	Active TSS	Psoas Muscle	Psoas
10	chr1:57109800-57112200	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
11	chr1:57109800-57112200	Active TSS	Brain Angular Gyrus	brain
12	chr1:57109800-57112400	Active TSS	Rectal Smooth Muscle	rectum
13	chr1:57109800-57113200	Active TSS	Right Atrium	heart
14	chr1:57109800-57114600	Active TSS	Skeletal Muscle Female	skeletal muscle
15	chr1:57110000-57111400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr1:57110000-57111400	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr1:57110000-57111400	Active TSS	NH-A	brain
18	chr1:57110000-57111600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
19	chr1:57110000-57111600	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
20	chr1:57110000-57111600	Active TSS	Fetal Lung	lung
21	chr1:57110000-57111600	Active TSS	Ovary	ovary
22	chr1:57110000-57111800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
23	chr1:57110000-57112000	Active TSS	H9 Cell Line	embryonic stem cell
24	chr1:57110000-57112000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr1:57110000-57112000	Active TSS	Fetal Brain Female	brain
26	chr1:57110000-57112000	Bivalent/Poised TSS	Osteobl	bone
27	chr1:57110000-57112200	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr1:57110000-57112200	Active TSS	Brain Cingulate Gyrus	brain
29	chr1:57110000-57112200	Active TSS	Hela-S3	cervix
30	chr1:57110000-57112400	Active TSS	Brain Anterior Caudate	brain
31	chr1:57110000-57112400	Active TSS	Brain Inferior Temporal Lobe	brain
32	chr1:57110000-57112400	Active TSS	Pancreatic Islets	Pancreatic Islet
33	chr1:57110000-57112600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
34	chr1:57110000-57113200	Active TSS	Stomach Smooth Muscle	stomach
35	chr1:57110000-57113400	Active TSS	Right Ventricle	heart
36	chr1:57110200-57111000	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells	blood
37	chr1:57110200-57111400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr1:57110200-57111400	Active TSS	Rectal Mucosa Donor 31	rectum
39	chr1:57110200-57111400	Active TSS	HepG2	liver
40	chr1:57110200-57111400	Active TSS	HSMM	muscle
41	chr1:57110200-57111400	Active TSS	HSMMtube	muscle
42	chr1:57110200-57111400	Active TSS	NHDF-Ad	bronchial
43	chr1:57110200-57111600	Active TSS	Breast Myoepithelial Primary Cells	Breast
44	chr1:57110200-57111600	Bivalent/Poised TSS	Fetal Kidney	kidney
45	chr1:57110200-57111800	Active TSS	Pancreas	Pancrea
46	chr1:57110200-57112000	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr1:57110200-57112000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
48	chr1:57110200-57112000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr1:57110200-57112000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
50	chr1:57110200-57112200	Active TSS	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links