Variant report

Variant	rs574428656
Chromosome Location	chr3:137833477-137833478
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	POLR2A	chr3:137833240-137833543	HCT-116	colon:	n/a	n/a
2	TCF12	chr3:137833086-137834872	A549	lung:	n/a	chr3:137834135-137834143
3	ZNF143	chr3:137833415-137834112	H1-hESC	embryonic stem cell:	n/a	n/a
4	MAX	chr3:137833461-137834847	A549	lung:	n/a	chr3:137834232-137834241
5	POLR2A	chr3:137833245-137835104	Hela-S3	cervix:	n/a	n/a
6	POLR2A	chr3:137833354-137834594	HepG2	liver:	n/a	n/a
7	POLR2A	chr3:137833446-137834797	HEK293	kidney:	n/a	n/a
8	POLR2A	chr3:137832958-137835110	IMR90	lung:	n/a	n/a
9	SMC3	chr3:137833396-137834153	Hela-S3	cervix:	n/a	chr3:137833678-137833688 chr3:137833982-137833992
10	CTCF	chr3:137833360-137833510	AG09309	skin:	n/a	n/a
11	POLR2A	chr3:137833220-137833482	Hela-S3	cervix:	n/a	n/a
12	CTCF	chr3:137833340-137833490	GM12872	blood:	n/a	n/a
13	CTCF	chr3:137833460-137833610	AG04449	skin:	n/a	n/a
14	POLR2A	chr3:137833294-137834857	H1-hESC	embryonic stem cell:	n/a	n/a
15	SMARCB1	chr3:137833283-137834832	Hela-S3	cervix:	n/a	n/a
16	HA-E2F1	chr3:137832959-137834741	MCF-7	breast:	n/a	chr3:137834566-137834578 chr3:137834017-137834029 chr3:137834149-137834156 chr3:137834149-137834156 chr3:137834017-137834028 chr3:137834149-137834156 chr3:137834148-137834160 chr3:137833979-137833993 chr3:137833976-137833990 chr3:137834192-137834204
17	MAZ	chr3:137833283-137834834	Hela-S3	cervix:	n/a	chr3:137834232-137834241
18	MAX	chr3:137833337-137834860	HepG2	liver:	n/a	chr3:137834232-137834241
19	CTCF	chr3:137833380-137833530	BJ	skin:	n/a	n/a
20	SIN3AK20	chr3:137833205-137834739	SK-N-SH	brain:	n/a	n/a
21	KAP1	chr3:137833169-137834733	HEK293	kidney:	n/a	n/a
22	POLR2A	chr3:137833314-137834753	MCF10A-Er-Src	breast:	n/a	n/a
23	MAX	chr3:137833251-137834852	A549	lung:	n/a	chr3:137834232-137834241
24	MXI1	chr3:137833082-137834832	IMR90	lung:	n/a	n/a
25	CTCF	chr3:137833090-137834862	SK-N-SH	brain:	n/a	chr3:137833678-137833691
26	ELK1	chr3:137833257-137834663	Hela-S3	cervix:	n/a	n/a
27	HCFC1	chr3:137833407-137834872	Hela-S3	cervix:	n/a	n/a
28	ZNF263	chr3:137833027-137834734	HEK293-T-REx	kidney:	n/a	chr3:137833362-137833371
29	CTCF	chr3:137833400-137833550	SK-N-SH_RA	brain:	n/a	n/a
30	POLR2A	chr3:137833152-137834798	MCF10A-Er-Src	breast:	n/a	n/a
31	GATA2	chr3:137833192-137834146	SH-SY5Y	brain:	n/a	chr3:137833284-137833293 chr3:137833282-137833294 chr3:137833411-137833419
32	CTBP2	chr3:137833340-137834761	H1-hESC	embryonic stem cell:	n/a	n/a
33	POLR2A	chr3:137833439-137833517	H1-hESC	embryonic stem cell:	n/a	n/a
34	CTCF	chr3:137833400-137833550	HRE	kidney:	n/a	n/a
35	MAZ	chr3:137833012-137834849	IMR90	lung:	n/a	chr3:137834232-137834241
36	POLR2A	chr3:137833123-137833619	PFSK-1	brain:	n/a	n/a
37	CTCF	chr3:137833380-137833530	GM12873	blood:	n/a	n/a
38	SMARCC1	chr3:137833330-137834754	Hela-S3	cervix:	n/a	n/a
39	POLR2A	chr3:137833244-137834819	Hela-S3	cervix:	n/a	n/a

Variant related genes	Relation type
DZIP1L	TF binding region

Extended variants
information (count: 6 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530056	chr3:137312356-138161861	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	esv2757890	chr3:137611789-137933835	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	esv2759180	chr3:137611789-137933835	Enhancers Active TSS Genic enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	esv2751978	chr3:137715302-137890750	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1007857	chr3:137767454-137843106	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv10330	chr3:137832799-137834598	Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:137814000-137833600	Weak transcription	Liver	Liver
2	chr3:137832000-137833800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:137832000-137833800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:137832200-137833800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr3:137832200-137833800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:137832200-137833800	Flanking Active TSS	Hela-S3	cervix
7	chr3:137832400-137834000	Weak transcription	Small Intestine	intestine
8	chr3:137832800-137833600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
9	chr3:137832800-137833800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
10	chr3:137833000-137833600	Flanking Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr3:137833000-137833600	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
12	chr3:137833000-137833600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
13	chr3:137833000-137833600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
14	chr3:137833000-137833600	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
15	chr3:137833000-137833600	Flanking Active TSS	Fetal Heart	heart
16	chr3:137833000-137833600	Flanking Active TSS	Fetal Lung	lung
17	chr3:137833000-137833600	Flanking Active TSS	NHDF-Ad	bronchial
18	chr3:137833000-137833600	Flanking Active TSS	NHLF	lung
19	chr3:137833000-137833800	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr3:137833000-137833800	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr3:137833000-137833800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr3:137833000-137833800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr3:137833000-137833800	Flanking Active TSS	Adipose Nuclei	Adipose
24	chr3:137833000-137833800	Flanking Active TSS	Fetal Muscle Leg	muscle
25	chr3:137833000-137833800	Flanking Active TSS	Fetal Stomach	stomach
26	chr3:137833000-137833800	Flanking Active TSS	HMEC	breast
27	chr3:137833000-137833800	Flanking Active TSS	Osteobl	bone
28	chr3:137833000-137834800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr3:137833000-137835200	Active TSS	Pancreatic Islets	Pancreatic Islet
30	chr3:137833200-137833600	Flanking Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:137833200-137833600	Flanking Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr3:137833200-137833600	Flanking Active TSS	Brain Anterior Caudate	brain
33	chr3:137833200-137833600	Flanking Active TSS	Ovary	ovary
34	chr3:137833200-137833600	Flanking Active TSS	Placenta Amnion	Placenta Amnion
35	chr3:137833200-137833600	Enhancers	Psoas Muscle	Psoas
36	chr3:137833200-137833600	Flanking Active TSS	Right Atrium	heart
37	chr3:137833200-137833600	Flanking Active TSS	Right Ventricle	heart
38	chr3:137833200-137833600	Enhancers	K562	blood
39	chr3:137833200-137833800	Flanking Active TSS	H1 Cell Line	embryonic stem cell
40	chr3:137833200-137833800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
41	chr3:137833200-137833800	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr3:137833200-137833800	Flanking Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
43	chr3:137833200-137833800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
44	chr3:137833200-137833800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr3:137833200-137833800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr3:137833200-137833800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
47	chr3:137833200-137833800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr3:137833200-137833800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr3:137833200-137833800	Flanking Active TSS	Brain Germinal Matrix	brain
50	chr3:137833200-137833800	Flanking Active TSS	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links