Variant report

Variant	rs61743287
Chromosome Location	chr1:151262645-151262646
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:74)
CpG islands
(count:61)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:74 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr1:151259288-151263774	GM12878	blood:	n/a	n/a
2	POLR2A	chr1:151259665-151264233	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr1:151258565-151268148	HepG2	liver:	n/a	n/a
4	POLR2A	chr1:151261201-151264155	H1-hESC	embryonic stem cell:	n/a	n/a
5	POLR2A	chr1:151259037-151266673	K562	blood:	n/a	n/a
6	POLR2A	chr1:151258729-151266837	GM12878	blood:	n/a	n/a
7	POLR2A	chr1:151262416-151262864	H1-hESC	embryonic stem cell:	n/a	n/a
8	POLR2A	chr1:151259107-151267227	GM12892	blood:	n/a	n/a
9	POLR2A	chr1:151261721-151262901	SK-N-SH	brain:	n/a	n/a
10	POLR2A	chr1:151259678-151264090	GM12892	blood:	n/a	n/a
11	POLR2A	chr1:151261715-151264122	K562	blood:	n/a	n/a
12	POLR2A	chr1:151260766-151265750	PANC-1	pancreas:	n/a	n/a
13	POLR2A	chr1:151261519-151263842	H1-neurons	neurons:	n/a	n/a
14	POLR2A	chr1:151258710-151264070	Hela-S3	cervix:	n/a	n/a
15	POLR2A	chr1:151262308-151264256	ProgFib	skin:	n/a	n/a
16	POLR2A	chr1:151259554-151264167	GM12878	blood:	n/a	n/a
17	POLR2A	chr1:151259480-151264119	HL-60	blood:	n/a	n/a
18	POLR2A	chr1:151259433-151264187	HepG2	liver:	n/a	n/a
19	POLR2A	chr1:151262602-151263422	U87	brain:	n/a	n/a
20	POLR2A	chr1:151262302-151262719	HCT-116	colon:	n/a	n/a
21	POLR2A	chr1:151259681-151266597	GM12891	blood:	n/a	n/a
22	POLR2A	chr1:151261078-151263828	Hela-S3	cervix:	n/a	n/a
23	POLR2A	chr1:151261751-151264087	H1-hESC	embryonic stem cell:	n/a	n/a
24	POLR2A	chr1:151258893-151264128	GM12891	blood:	n/a	n/a
25	POLR2A	chr1:151258785-151264194	K562	blood:	n/a	n/a
26	POLR2A	chr1:151260831-151264063	GM18951	blood:	n/a	n/a
27	POLR2A	chr1:151258999-151264207	GM12891	blood:	n/a	n/a
28	POLR2A	chr1:151259435-151264128	GM19193	blood:	n/a	n/a
29	POU2F2	chr1:151262358-151263518	GM12891	blood:	n/a	n/a
30	POLR2A	chr1:151260999-151263923	Hela-S3	cervix:	n/a	n/a
31	POLR2A	chr1:151261089-151262861	GM18505	blood:	n/a	n/a
32	POLR2A	chr1:151259614-151263775	H1-hESC	embryonic stem cell:	n/a	n/a
33	POLR2A	chr1:151259084-151264063	A549	lung:	n/a	n/a
34	POLR2A	chr1:151260807-151264150	K562	blood:	n/a	n/a
35	POLR2A	chr1:151259703-151266811	MCF-7	breast:	n/a	n/a
36	POLR2A	chr1:151259317-151263769	GM12878	blood:	n/a	n/a
37	POLR2A	chr1:151262333-151262998	GM12891	blood:	n/a	n/a
38	POLR2A	chr1:151260810-151264160	U87	brain:	n/a	n/a
39	POLR2A	chr1:151262331-151262969	HUVEC	blood vessel:	n/a	n/a
40	STAT5A	chr1:151262468-151263008	GM12878	blood:	n/a	n/a
41	POLR2A	chr1:151262602-151262929	U87	brain:	n/a	n/a
42	POLR2A	chr1:151259077-151268200	K562	blood:	n/a	n/a
43	POLR2A	chr1:151258842-151264110	GM12892	blood:	n/a	n/a
44	POLR2A	chr1:151262298-151263775	GM15510	blood:	n/a	n/a
45	POLR2A	chr1:151262390-151262875	A549	lung:	n/a	n/a
46	POLR2A	chr1:151262318-151263061	A549	lung:	n/a	n/a
47	POLR2A	chr1:151261006-151264109	GM12892	blood:	n/a	n/a
48	POLR2A	chr1:151259441-151264179	Hela-S3	cervix:	n/a	n/a
49	POLR2A	chr1:151262327-151263237	GM12878	blood:	n/a	n/a
50	POLR2A	chr1:151258964-151264093	GM12891	blood:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr1:151262619-151262669	HepG2	liver:	n/a
2	chr1:151262619-151262669	SK-N-MC	brain:	n/a
3	chr1:151262619-151262669	HCM	heart:	n/a
4	chr1:151262619-151262669	SKMC	muscle:	n/a
5	chr1:151262619-151262669	MCF-7	breast:	n/a
6	chr1:151262619-151262669	HRPEpiC	eye:	n/a
7	chr1:151262619-151262669	GM12891	blood:	n/a
8	chr1:151262619-151262669	HIPEpiC	eye:	n/a
9	chr1:151262619-151262669	AG09309	skin:	n/a
10	chr1:151262619-151262669	NH-A	brain:	n/a
11	chr1:151262619-151262669	CMK	blood:	n/a
12	chr1:151262619-151262669	A549	lung:	n/a
13	chr1:151262619-151262669	HCF	heart:	n/a
14	chr1:151262619-151262669	GM12878	blood:	n/a
15	chr1:151262619-151262669	T-47D	breast:	n/a
16	chr1:151262619-151262669	H1-hESC	embryonic stem cell:	embryo
17	chr1:151262619-151262669	BE2_C	brain:	n/a
18	chr1:151262619-151262669	PANC-1	pancreas:	n/a
19	chr1:151262619-151262669	RPTEC	kidney:	n/a
20	chr1:151262619-151262669	NHBE	bronchial:	n/a
21	chr1:151262619-151262669	HUVEC	blood vessel:	n/a
22	chr1:151262619-151262669	LNCaP	prostate:	n/a
23	chr1:151262619-151262669	AG04450	lung:	fetal
24	chr1:151262619-151262669	U87	brain:	n/a
25	chr1:151262619-151262669	SAEC	small airway:	n/a
26	chr1:151262619-151262669	SK-N-SH_RA	brain:	n/a
27	chr1:151262619-151262669	AG09319	gingival:	n/a
28	chr1:151262619-151262669	AG04449	skin:	fetal
29	chr1:151262619-151262669	HPAEpiC	pulmonary alveolar:	n/a
30	chr1:151262619-151262669	HL-60	blood:	n/a
31	chr1:151262619-151262669	Jurkat	blood:	n/a
32	chr1:151262619-151262669	IMR90	lung:	fetal
33	chr1:151262619-151262669	K562	blood:	n/a
34	chr1:151262619-151262669	Caco-2	colon:	n/a
35	chr1:151262619-151262669	NHDF-neo	bronchial:	n/a
36	chr1:151262619-151262669	NT2-D1	testis:	n/a
37	chr1:151262619-151262669	AG10803	skin:	n/a
38	chr1:151262619-151262669	MCF10A-Er-Src	breast:	n/a
39	chr1:151262619-151262669	PFSK-1	brain:	n/a
40	chr1:151262619-151262669	Hepatocyte	liver:	n/a
41	chr1:151262619-151262669	HAEpiC	amniotic membrane:	n/a
42	chr1:151262619-151262669	HMEC	breast:	n/a
43	chr1:151262619-151262669	HCPEpiC	choroid plexus:	n/a
44	chr1:151262619-151262669	HCT-116	colon:	n/a
45	chr1:151262619-151262669	HNPCEpiC	eye:	n/a
46	chr1:151262619-151262669	HEEpiC	esophagus:	n/a
47	chr1:151262619-151262669	AoSMC	blood vessel:	n/a
48	chr1:151262619-151262669	GM12892	blood:	n/a
49	chr1:151262619-151262669	Hela-S3	cervix:	n/a
50	chr1:151262619-151262669	PrEC	prostate:	n/a

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:151260943..151262653-chr1:151373072..151375141,2	K562	blood:
2	chr1:151262262..151263961-chr1:151340397..151342211,2	MCF-7	breast:
3	chr1:151260960..151263858-chr1:151273535..151276289,2	K562	blood:
4	chr1:151262059..151264776-chr1:151727556..151730221,2	K562	blood:
5	chr1:151261557..151264392-chr1:151278730..151281200,2	K562	blood:
6	1:151254384-151268403..1:151402394-151411623	GM12878	blood:
7	chr1:151261164..151262813-chr1:151298623..151300317,2	MCF-7	breast:
8	chr1:151261212..151263374-chr1:151298008..151300724,2	K562	blood:
9	1:151171193-151178589..1:151254384-151268403	Hela-S3	cervix:

No data

Variant related genes	Relation type
ZNF687	TF binding region
ZNF687	CpG island
ENSG00000269621	Chromatin interaction
ENSG00000159377	Chromatin interaction
ENSG00000238711	Chromatin interaction
ENSG00000143416	Chromatin interaction
ENSG00000273481	Chromatin interaction
ENSG00000236940	Chromatin interaction
ENSG00000143398	Chromatin interaction
ENSG00000143393	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs2233843	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]

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	nsv522840	chr1:150933723-151347746	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
2	nsv916272	chr1:150961809-151557253	Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	219 gene(s)	inside rSNPs	diseases
3	nsv831570	chr1:151129020-151281778	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS 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 target site	106 gene(s)	inside rSNPs	diseases
4	esv2754960	chr1:151240542-151331304	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
5	esv34461	chr1:151240542-151411635	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
6	esv2753774	chr1:151240542-151411635	Genic enhancers Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:151256000-151270600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:151256800-151264600	Weak transcription	NHDF-Ad	bronchial
3	chr1:151256800-151268400	Strong transcription	NHEK	skin
4	chr1:151256800-151281400	Strong transcription	Fetal Stomach	stomach
5	chr1:151257000-151266400	Strong transcription	HUES6 Cell Line	embryonic stem cell
6	chr1:151257000-151266600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr1:151257000-151266600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr1:151257000-151267000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr1:151257000-151281200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr1:151257000-151281800	Weak transcription	Right Atrium	heart
11	chr1:151257200-151262800	Strong transcription	K562	blood
12	chr1:151257200-151266000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr1:151257200-151266400	Strong transcription	iPS-15b Cell Line	embryonic stem cell
14	chr1:151257200-151270200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr1:151257200-151283000	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr1:151257200-151297600	Strong transcription	Dnd41	blood
17	chr1:151257400-151263200	Strong transcription	H1 Cell Line	embryonic stem cell
18	chr1:151257400-151264000	Strong transcription	H9 Cell Line	embryonic stem cell
19	chr1:151257400-151265000	Strong transcription	Fetal Thymus	thymus
20	chr1:151257400-151265800	Strong transcription	HUES48 Cell Line	embryonic stem cell
21	chr1:151257400-151266400	Strong transcription	HUES64 Cell Line	embryonic stem cell
22	chr1:151257400-151266400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr1:151257400-151267400	Weak transcription	Fetal Brain Male	brain
24	chr1:151257400-151272200	Strong transcription	HepG2	liver
25	chr1:151257400-151281200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr1:151257400-151281200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr1:151257400-151281800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr1:151257400-151282000	Strong transcription	Fetal Lung	lung
29	chr1:151257400-151282200	Strong transcription	Fetal Intestine Large	intestine
30	chr1:151257400-151282200	Strong transcription	Osteobl	bone
31	chr1:151257400-151283600	Strong transcription	Rectal Mucosa Donor 31	rectum
32	chr1:151257600-151264400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr1:151257600-151264800	Strong transcription	Fetal Muscle Leg	muscle
34	chr1:151257600-151266400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
35	chr1:151257600-151270800	Weak transcription	Fetal Heart	heart
36	chr1:151257600-151272200	Strong transcription	Primary T cells from cord blood	blood
37	chr1:151257600-151281200	Strong transcription	Adipose Nuclei	Adipose
38	chr1:151257600-151281200	Strong transcription	Skeletal Muscle Male	skeletal muscle
39	chr1:151257600-151293600	Strong transcription	Brain Germinal Matrix	brain
40	chr1:151257800-151265000	Strong transcription	Primary B cells from cord blood	blood
41	chr1:151257800-151266800	Strong transcription	Cortex derived primary cultured neurospheres	brain
42	chr1:151257800-151269000	Strong transcription	GM12878-XiMat	blood
43	chr1:151257800-151281600	Strong transcription	Skeletal Muscle Female	skeletal muscle
44	chr1:151257800-151282000	Strong transcription	Duodenum Mucosa	Duodenum
45	chr1:151258000-151283200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr1:151258000-151283600	Strong transcription	Lung	lung
47	chr1:151258200-151266800	Strong transcription	Brain Angular Gyrus	brain
48	chr1:151258200-151266800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr1:151258200-151271800	Strong transcription	Primary hematopoietic stem cells	blood
50	chr1:151258200-151271800	Strong transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links