Variant report

Variant	rs3811782
Chromosome Location	chr4:54243905-54243906
allele	C/T
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	MYC	chr4:54243675-54244138	MCF-7	breast:	n/a	n/a
2	POLR2A	chr4:54243530-54243976	HepG2	liver:	n/a	n/a
3	ZNF143	chr4:54243562-54244288	Hela-S3	cervix:	n/a	n/a
4	ZNF143	chr4:54243531-54243969	H1-hESC	embryonic stem cell:	n/a	n/a
5	POLR2A	chr4:54243462-54244508	GM12891	blood:	n/a	n/a
6	POLR2A	chr4:54243182-54244282	HepG2	liver:	n/a	n/a
7	REST	chr4:54243425-54243973	PFSK-1	brain:	n/a	n/a
8	GABPA	chr4:54243859-54244206	GM12878	blood:	n/a	n/a
9	ELF1	chr4:54243555-54244472	GM12878	blood:	n/a	chr4:54243762-54243771
10	POLR2A	chr4:54243667-54244322	H1-hESC	embryonic stem cell:	n/a	n/a
11	TAF1	chr4:54243676-54244310	H1-hESC	embryonic stem cell:	n/a	n/a
12	MAFK	chr4:54243805-54243982	HepG2	liver:	n/a	n/a
13	TAF1	chr4:54243314-54244162	K562	blood:	n/a	n/a
14	POLR2A	chr4:54243385-54244069	U87	brain:	n/a	n/a
15	POLR2A	chr4:54243482-54244321	Hela-S3	cervix:	n/a	n/a
16	POLR2A	chr4:54243442-54244044	K562	blood:	n/a	n/a
17	GABPA	chr4:54243900-54244150	GM12878	blood:	n/a	n/a
18	BHLHE40	chr4:54243439-54244370	GM12878	blood:	n/a	n/a
19	POLR2A	chr4:54243526-54244363	MCF-7	breast:	n/a	n/a
20	CREB1	chr4:54243525-54244120	A549	lung:	n/a	n/a
21	MAX	chr4:54243287-54244774	NB4	blood:	n/a	chr4:54243636-54243646
22	MAZ	chr4:54243449-54244177	Hela-S3	cervix:	n/a	chr4:54243636-54243646
23	POLR2A	chr4:54243436-54244437	K562	blood:	n/a	n/a
24	YY1	chr4:54243550-54244185	GM12891	blood:	n/a	chr4:54243997-54244017 chr4:54243999-54244011 chr4:54243638-54243647
25	TAF1	chr4:54243566-54244138	HepG2	liver:	n/a	n/a
26	POLR2A	chr4:54243462-54244417	GM12892	blood:	n/a	n/a
27	RAD21	chr4:54243436-54244447	IMR90	lung:	n/a	n/a
28	POLR2A	chr4:54243441-54244340	K562	blood:	n/a	n/a
29	YY1	chr4:54243495-54244392	K562	blood:	n/a	chr4:54243997-54244017 chr4:54243999-54244011 chr4:54243638-54243647
30	MXI1	chr4:54243504-54244491	HepG2	liver:	n/a	n/a
31	MAZ	chr4:54243356-54244800	IMR90	lung:	n/a	chr4:54243636-54243646
32	RCOR1	chr4:54243004-54244418	K562	blood:	n/a	n/a
33	HEY1	chr4:54243650-54244306	HepG2	liver:	n/a	n/a
34	CBX3	chr4:54243395-54244190	K562	blood:	n/a	n/a
35	POLR2A	chr4:54243465-54244099	K562	blood:	n/a	n/a
36	TBP	chr4:54243302-54244013	GM12878	blood:	n/a	n/a
37	RCOR1	chr4:54243668-54244201	HepG2	liver:	n/a	n/a
38	TAF1	chr4:54243687-54243937	PFSK-1	brain:	n/a	n/a
39	POLR2A	chr4:54243465-54244358	Hela-S3	cervix:	n/a	n/a
40	TAF1	chr4:54243393-54244149	PFSK-1	brain:	n/a	n/a
41	CEBPD	chr4:54243630-54243947	HepG2	liver:	n/a	n/a
42	MYBL2	chr4:54243723-54244130	HepG2	liver:	n/a	n/a
43	YY1	chr4:54243552-54244327	ECC-1	luminal epithelium:	n/a	chr4:54243997-54244017 chr4:54243999-54244011 chr4:54243638-54243647
44	REST	chr4:54243393-54244034	A549	lung:	n/a	n/a
45	TCF7L2	chr4:54243590-54244216	PANC-1	pancreas:	n/a	n/a
46	TAF1	chr4:54243405-54244134	H1-neurons	neurons:	n/a	n/a
47	ZMIZ1	chr4:54243450-54244476	K562	blood:	n/a	n/a
48	POLR2A	chr4:54243472-54244527	GM12892	blood:	n/a	n/a
49	ELF1	chr4:54243551-54244088	HepG2	liver:	n/a	chr4:54243762-54243771
50	POLR2A	chr4:54243503-54244360	ECC-1	luminal epithelium:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr4:54231262..54233846-chr4:54243717..54245288,2	MCF-7	breast:
2	chr4:54230756..54233682-chr4:54240977..54245711,5	MCF-7	breast:
3	chr4:54231892..54232556-chr4:54243887..54244579,2	MCF-7	breast:
4	chr16:85833174..85833794-chr4:54243251..54244239,2	Hela-S3	cervix:

Variant related genes	Relation type
FIP1L1	TF binding region
ENSG00000131148	Chromatin interaction
ENSG00000184178	Chromatin interaction
ENSG00000131143	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10000746	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10001201	0.88[EUR][1000 genomes]
rs10007903	0.81[EUR][1000 genomes]
rs10011259	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10017903	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10021541	0.88[EUR][1000 genomes]
rs10028142	0.82[EUR][1000 genomes]
rs1021099	0.88[EUR][1000 genomes]
rs11133266	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11722866	0.83[EUR][1000 genomes]
rs11723755	0.83[EUR][1000 genomes]
rs11725230	0.83[EUR][1000 genomes]
rs11731499	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11734039	0.88[EUR][1000 genomes]
rs11947256	0.88[EUR][1000 genomes]
rs12649718	0.88[EUR][1000 genomes]
rs1471597	0.88[EUR][1000 genomes]
rs1481819	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1481824	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1531748	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1600795	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17082782	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17520800	0.82[EUR][1000 genomes]
rs2090117	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2271554	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2412447	0.88[EUR][1000 genomes]
rs2412488	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28414913	0.82[EUR][1000 genomes]
rs28579268	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35499169	0.87[EUR][1000 genomes]
rs3765158	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3811785	0.82[EUR][1000 genomes]
rs4864759	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4864760	0.88[EUR][1000 genomes]
rs56998298	0.88[EUR][1000 genomes]
rs6554100	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6554104	0.88[EUR][1000 genomes]
rs6554105	0.88[EUR][1000 genomes]
rs6554106	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6825364	0.81[EUR][1000 genomes]
rs6827269	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6828559	0.83[EUR][1000 genomes]
rs6833766	0.83[EUR][1000 genomes]
rs6834934	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6848887	0.87[EUR][1000 genomes]
rs6852884	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6857024	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6857869	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7655975	0.88[EUR][1000 genomes]
rs7682199	0.80[EUR][1000 genomes]
rs7686177	0.80[EUR][1000 genomes]
rs7686876	0.88[EUR][1000 genomes]
rs7689981	0.82[EUR][1000 genomes]
rs7690908	0.82[EUR][1000 genomes]
rs7691578	0.83[EUR][1000 genomes]
rs7697622	0.88[EUR][1000 genomes]
rs7698792	0.82[EUR][1000 genomes]
rs931181	0.88[EUR][1000 genomes]
rs931182	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9312639	0.82[EUR][1000 genomes]
rs980987	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9995284	0.81[EUR][1000 genomes]

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54243000-54244800	Active TSS	Fetal Lung	lung
2	chr4:54243000-54244800	Active TSS	Rectal Mucosa Donor 29	rectum
3	chr4:54243000-54245000	Active TSS	Brain Cingulate Gyrus	brain
4	chr4:54243000-54247800	Active TSS	GM12878-XiMat	blood
5	chr4:54243200-54244000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr4:54243200-54244600	Active TSS	Rectal Smooth Muscle	rectum
7	chr4:54243200-54244600	Active TSS	Sigmoid Colon	Sigmoid Colon
8	chr4:54243200-54244800	Active TSS	HUES64 Cell Line	embryonic stem cell
9	chr4:54243200-54244800	Active TSS	Pancreatic Islets	Pancreatic Islet
10	chr4:54243200-54244800	Active TSS	Fetal Muscle Trunk	muscle
11	chr4:54243200-54244800	Active TSS	NHEK	skin
12	chr4:54243200-54245000	Active TSS	H9 Cell Line	embryonic stem cell
13	chr4:54243200-54245200	Active TSS	Breast Myoepithelial Primary Cells	Breast
14	chr4:54243200-54245200	Active TSS	Fetal Intestine Small	intestine
15	chr4:54243200-54245200	Active TSS	Fetal Stomach	stomach
16	chr4:54243200-54245400	Active TSS	H1 Cell Line	embryonic stem cell
17	chr4:54243200-54245400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr4:54243200-54245400	Active TSS	iPS-15b Cell Line	embryonic stem cell
19	chr4:54243200-54245400	Flanking Active TSS	Primary hematopoietic stem cells	blood
20	chr4:54243200-54245400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr4:54243200-54245400	Active TSS	Psoas Muscle	Psoas
22	chr4:54243200-54245400	Active TSS	Right Ventricle	heart
23	chr4:54243200-54245600	Active TSS	ES-I3 Cell Line	embryonic stem cell
24	chr4:54243200-54245800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr4:54243200-54246000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr4:54243200-54246200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr4:54243200-54246200	Active TSS	Ovary	ovary
28	chr4:54243200-54246200	Active TSS	Thymus	Thymus
29	chr4:54243200-54246400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr4:54243400-54244000	Active TSS	HepG2	liver
31	chr4:54243400-54244400	Active TSS	Primary monocytes fromperipheralblood	blood
32	chr4:54243400-54244400	Active TSS	Primary T killer naive cells fromperipheralblood	blood
33	chr4:54243400-54244400	Active TSS	Placenta Amnion	Placenta Amnion
34	chr4:54243400-54244400	Active TSS	Skeletal Muscle Male	skeletal muscle
35	chr4:54243400-54244600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr4:54243400-54244600	Active TSS	Liver	Liver
37	chr4:54243400-54244600	Active TSS	Brain Angular Gyrus	brain
38	chr4:54243400-54244600	Active TSS	Brain Substantia Nigra	brain
39	chr4:54243400-54244600	Active TSS	Colon Smooth Muscle	Colon
40	chr4:54243400-54244600	Active TSS	Duodenum Mucosa	Duodenum
41	chr4:54243400-54244600	Active TSS	Fetal Brain Female	brain
42	chr4:54243400-54244600	Active TSS	Small Intestine	intestine
43	chr4:54243400-54244800	Active TSS	Primary B cells from peripheral blood	blood
44	chr4:54243400-54244800	Active TSS	Cortex derived primary cultured neurospheres	brain
45	chr4:54243400-54244800	Active TSS	Brain Anterior Caudate	brain
46	chr4:54243400-54244800	Active TSS	Brain Inferior Temporal Lobe	brain
47	chr4:54243400-54244800	Active TSS	Fetal Brain Male	brain
48	chr4:54243400-54244800	Active TSS	Skeletal Muscle Female	skeletal muscle
49	chr4:54243400-54245000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
50	chr4:54243400-54245000	Active TSS	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links