Variant report

Variant	rs74116302
Chromosome Location	chr1:155101536-155101537
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	EBF1	chr1:155101448-155101716	GM12878	blood:	n/a	n/a
2	TCF7L2	chr1:155101096-155102221	HCT-116	colon:	n/a	chr1:155101326-155101336 chr1:155101323-155101337 chr1:155101325-155101334
3	HNF4A	chr1:155101407-155102212	HepG2	liver:	n/a	chr1:155101715-155101730 chr1:155101717-155101729 chr1:155101716-155101731
4	FOSL1	chr1:155101455-155102805	HCT-116	colon:	n/a	chr1:155102410-155102420 chr1:155102411-155102419 chr1:155102409-155102421 chr1:155102410-155102420
5	EP300	chr1:155101467-155102859	ECC-1	luminal epithelium:	n/a	chr1:155102524-155102538
6	POLR2A	chr1:155101384-155102037	HepG2	liver:	n/a	n/a
7	HDAC2	chr1:155101192-155102824	MCF-7	breast:	n/a	n/a
8	RXRA	chr1:155101517-155101893	HepG2	liver:	n/a	chr1:155101793-155101812
9	MAX	chr1:155101513-155101907	HepG2	liver:	n/a	n/a
10	MXI1	chr1:155101395-155102099	HepG2	liver:	n/a	n/a
11	FOXA1	chr1:155101447-155101983	HepG2	liver:	n/a	n/a
12	POLR2A	chr1:155101450-155101952	HUVEC	blood vessel:	n/a	n/a
13	POLR2A	chr1:155098341-155102845	Hela-S3	cervix:	n/a	n/a
14	NFIC	chr1:155101477-155101943	HepG2	liver:	n/a	n/a
15	TCF12	chr1:155101490-155102840	ECC-1	luminal epithelium:	n/a	chr1:155101589-155101596 chr1:155101744-155101751
16	MXI1	chr1:155101483-155101795	Hela-S3	cervix:	n/a	n/a
17	TBP	chr1:155101099-155101877	HepG2	liver:	n/a	n/a
18	GTF2F1	chr1:155101530-155102089	Hela-S3	cervix:	n/a	n/a
19	MYBL2	chr1:155101424-155102020	HepG2	liver:	n/a	n/a
20	GATA2	chr1:155101058-155101686	SH-SY5Y	brain:	n/a	n/a
21	POLR2A	chr1:155101486-155102690	MCF-7	breast:	n/a	n/a
22	POLR2A	chr1:155096985-155102845	MCF10A-Er-Src	breast:	n/a	n/a
23	ZBTB7A	chr1:155101493-155102955	ECC-1	luminal epithelium:	n/a	n/a
24	CHD2	chr1:155101449-155101751	HepG2	liver:	n/a	n/a
25	FOS	chr1:155101482-155102561	HUVEC	blood vessel:	n/a	chr1:155102410-155102420 chr1:155102411-155102419 chr1:155102409-155102421 chr1:155102410-155102420
26	TFAP2C	chr1:155096588-155102821	Hela-S3	cervix:	n/a	chr1:155098584-155098599 chr1:155102536-155102551 chr1:155100255-155100270
27	POLR2A	chr1:155101383-155102779	ECC-1	luminal epithelium:	n/a	n/a
28	POLR2A	chr1:155101390-155102718	HCT-116	colon:	n/a	n/a
29	POLR2A	chr1:155100236-155102479	HepG2	liver:	n/a	n/a
30	POLR2A	chr1:155097222-155104778	HepG2	liver:	n/a	n/a
31	CEBPB	chr1:155101359-155101559	Hela-S3	cervix:	n/a	n/a
32	POLR2A	chr1:155101017-155103272	HepG2	liver:	n/a	n/a
33	RCOR1	chr1:155101111-155101827	HepG2	liver:	n/a	n/a
34	FOXP2	chr1:155101497-155101872	PFSK-1	brain:	n/a	n/a
35	POLR2A	chr1:155099456-155102550	HUVEC	blood vessel:	n/a	n/a
36	POLR2A	chr1:155101500-155101696	A549	lung:	n/a	n/a
37	SIN3AK20	chr1:155101512-155101951	HepG2	liver:	n/a	n/a
38	EP300	chr1:155101489-155101843	HepG2	liver:	n/a	n/a
39	POLR2A	chr1:155100249-155104737	HepG2	liver:	n/a	n/a
40	YY1	chr1:155101439-155101955	HepG2	liver:	n/a	chr1:155101888-155101899
41	HNF4G	chr1:155101433-155101952	HepG2	liver:	n/a	chr1:155101714-155101729 chr1:155101717-155101729 chr1:155101716-155101731
42	CEBPD	chr1:155101465-155101954	HepG2	liver:	n/a	n/a
43	HNF4A	chr1:155101469-155101926	HepG2	liver:	n/a	chr1:155101715-155101730 chr1:155101717-155101729 chr1:155101716-155101731
44	ZBTB7A	chr1:155099557-155102902	ECC-1	luminal epithelium:	n/a	n/a
45	POLR2A	chr1:155101364-155102011	HepG2	liver:	n/a	n/a
46	POLR2A	chr1:155101415-155102306	HUVEC	blood vessel:	n/a	n/a
47	FOXA1	chr1:155101536-155101970	T-47D	breast:	n/a	n/a
48	TEAD4	chr1:155101189-155101953	HepG2	liver:	n/a	n/a
49	TCF7L2	chr1:155100948-155101829	HEK293	kidney:	n/a	chr1:155101326-155101336 chr1:155101323-155101337 chr1:155101325-155101334
50	TCF7L2	chr1:155100910-155101796	Hela-S3	cervix:	n/a	chr1:155101326-155101336 chr1:155101323-155101337 chr1:155101325-155101334

No.	Distal block	Cell Line	Cell type
1	chr1:155099451..155102336-chr6:27776687..27779634,2	MCF-7	breast:
2	chr1:154986410..154988338-chr1:155099789..155102344,2	MCF-7	breast:
3	chr1:154973069..154975738-chr1:155098828..155103753,6	MCF-7	breast:
4	chr1:155094769..155105017-chr1:155135344..155151845,46	MCF-7	breast:
5	chr1:155049589..155073019-chr1:155085330..155115362,149	MCF-7	breast:
6	chr1:155095314..155110392-chr1:155134312..155151496,72	MCF-7	breast:
7	chr1:154971203..154978007-chr1:155093683..155103687,24	MCF-7	breast:
8	chr1:155099426..155102245-chr1:155118836..155121124,2	K562	blood:
9	chr1:154942779..154946822-chr1:155099948..155103477,6	MCF-7	breast:
10	chr1:155096309..155104200-chr1:155157595..155166389,23	MCF-7	breast:
11	chr1:154190385..154194245-chr1:155097625..155102022,4	MCF-7	breast:
12	chr1:155099597..155102197-chr20:52823453..52826190,2	MCF-7	breast:
13	chr1:155033872..155036303-chr1:155100815..155102776,3	MCF-7	breast:
14	chr1:155100990..155102767-chr1:155177310..155179294,2	MCF-7	breast:
15	chr1:154927921..154930656-chr1:155100547..155102182,2	MCF-7	breast:
16	chr1:155099520..155102330-chr1:155176910..155178560,2	K562	blood:
17	chr1:154909403..154911372-chr1:155099659..155102635,3	MCF-7	breast:
18	chr1:155022054..155026411-chr1:155097710..155103379,8	MCF-7	breast:

Variant related genes	Relation type
EFNA1	TF binding region
ENSG00000143590	Chromatin interaction
ENSG00000163344	Chromatin interaction
ENSG00000251246	Chromatin interaction
ENSG00000173171	Chromatin interaction
ENSG00000223452	Chromatin interaction
ENSG00000273088	Chromatin interaction
ENSG00000271748	Chromatin interaction
ENSG00000270361	Chromatin interaction
ENSG00000163462	Chromatin interaction
ENSG00000163346	Chromatin interaction
ENSG00000163463	Chromatin interaction
ENSG00000243364	Chromatin interaction
ENSG00000185499	Chromatin interaction
ENSG00000101132	Chromatin interaction
ENSG00000169231	Chromatin interaction
ENSG00000203813	Chromatin interaction
ENSG00000160691	Chromatin interaction
ENSG00000160685	Chromatin interaction
ENSG00000143569	Chromatin interaction
ENSG00000143537	Chromatin interaction
ENSG00000143612	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs59692280	1.00[AFR][1000 genomes]
rs74118409	1.00[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	nsv532579	chr1:154548165-155262692	Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Weak transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	575 gene(s)	inside rSNPs	diseases
2	esv1823746	chr1:154965207-155231904	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	469 gene(s)	inside rSNPs	diseases
3	nsv872455	chr1:155003954-155106550	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
4	nsv998756	chr1:155080090-155136545	Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
5	nsv464084	chr1:155082298-155194980	Weak transcription Bivalent Enhancer Active TSS Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	366 gene(s)	inside rSNPs	diseases
6	nsv547961	chr1:155082298-155194980	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	366 gene(s)	inside rSNPs	diseases
7	nsv831614	chr1:155094978-155275031	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	434 gene(s)	inside rSNPs	diseases
8	esv2757756	chr1:155094978-155314807	Bivalent Enhancer Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	452 gene(s)	inside rSNPs	diseases
9	esv2758971	chr1:155094978-155314807	Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	452 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:155098400-155101600	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
2	chr1:155098400-155101800	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
3	chr1:155098400-155103200	Active TSS	Liver	Liver
4	chr1:155098600-155101600	Active TSS	Brain Angular Gyrus	brain
5	chr1:155098600-155101600	Active TSS	Brain Anterior Caudate	brain
6	chr1:155098600-155101600	Active TSS	Brain Substantia Nigra	brain
7	chr1:155098800-155102000	Active TSS	Psoas Muscle	Psoas
8	chr1:155098800-155103000	Active TSS	Gastric	stomach
9	chr1:155098800-155103400	Active TSS	Pancreatic Islets	Pancreatic Islet
10	chr1:155099000-155101800	Active TSS	Brain Cingulate Gyrus	brain
11	chr1:155099000-155102000	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
12	chr1:155099200-155101800	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr1:155099200-155102800	Bivalent/Poised TSS	HepG2	liver
14	chr1:155099200-155103200	Active TSS	Small Intestine	intestine
15	chr1:155099400-155102000	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr1:155099600-155102200	Active TSS	Brain Hippocampus Middle	brain
17	chr1:155099600-155103600	Active TSS	Left Ventricle	heart
18	chr1:155099800-155101600	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr1:155099800-155101600	Bivalent/Poised TSS	Fetal Intestine Large	intestine
20	chr1:155099800-155102800	Active TSS	Breast Myoepithelial Primary Cells	Breast
21	chr1:155099800-155103600	Active TSS	Lung	lung
22	chr1:155100000-155103400	Active TSS	Esophagus	oesophagus
23	chr1:155100200-155101600	Bivalent/Poised TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr1:155100200-155102000	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
25	chr1:155100200-155102200	Active TSS	Stomach Mucosa	stomach
26	chr1:155100400-155101600	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr1:155100400-155101800	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
28	chr1:155100400-155101800	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
29	chr1:155100400-155101800	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
30	chr1:155100400-155102000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
31	chr1:155100400-155102400	Flanking Active TSS	Primary T cells from cord blood	blood
32	chr1:155100400-155102400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
33	chr1:155100400-155102400	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
34	chr1:155100400-155102800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
35	chr1:155100400-155102800	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
36	chr1:155100400-155102800	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
37	chr1:155100400-155103000	Flanking Active TSS	Primary hematopoietic stem cells	blood
38	chr1:155100400-155103000	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
39	chr1:155100400-155103000	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
40	chr1:155100400-155103200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr1:155100400-155103400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr1:155100400-155103400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
43	chr1:155100600-155101800	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
44	chr1:155100600-155101800	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
45	chr1:155100600-155101800	Flanking Bivalent TSS/Enh	Fetal Lung	lung
46	chr1:155100600-155102200	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
47	chr1:155100600-155102200	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
48	chr1:155100600-155102400	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
49	chr1:155100600-155102800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr1:155100600-155103200	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links