Variant report

Variant	rs34221933
Chromosome Location	chr4:7000680-7000681
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:16)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:16 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr4:7000544-7001479	MCF10A-Er-Src	breast:	n/a	n/a
2	TEAD4	chr4:7000664-7001409	ECC-1	luminal epithelium:	n/a	n/a
3	JUND	chr4:7000562-7001580	HCT-116	colon:	n/a	n/a
4	ZNF384	chr4:6999881-7001187	K562	blood:	n/a	n/a
5	ATF3	chr4:7000617-7001500	HCT-116	colon:	n/a	n/a
6	RCOR1	chr4:7000643-7001358	K562	blood:	n/a	n/a
7	POLR2A	chr4:7000657-7001484	HCT-116	colon:	n/a	n/a
8	POLR2A	chr4:7000606-7006654	K562	blood:	n/a	n/a
9	JUN	chr4:7000457-7001453	K562	blood:	n/a	n/a
10	CEBPB	chr4:7000633-7001460	HCT-116	colon:	n/a	chr4:7001041-7001052
11	SP1	chr4:7000533-7001604	HCT-116	colon:	n/a	n/a
12	STAT3	chr4:7000661-7001220	MCF10A-Er-Src	breast:	n/a	n/a
13	SP1	chr4:7000512-7001596	HCT-116	colon:	n/a	n/a
14	MYC	chr4:7000673-7001296	K562	blood:	n/a	n/a
15	POLR2A	chr4:6999999-7001560	MCF10A-Er-Src	breast:	n/a	n/a
16	MAFK	chr4:7000654-7001254	K562	blood:	n/a	n/a

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:7000132..7002859-chr4:7044384..7046741,2	MCF-7	breast:
2	chr4:6999660..7002155-chr4:7043088..7045317,3	MCF-7	breast:
3	chr4:6999677..7002587-chr4:7042055..7044238,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TADA2B-1	chr4:7000502-7000685	ENSG00000187904.3

No data

Variant related genes	Relation type
TBC1D14	TF binding region
ENSG00000173013	Chromatin interaction
ENSG00000173011	Chromatin interaction

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10012590	1.00[ASN][1000 genomes]
rs10025310	1.00[ASN][1000 genomes]
rs10516181	0.81[ASN][1000 genomes]
rs10937776	0.81[ASN][1000 genomes]
rs11732898	0.81[ASN][1000 genomes]
rs11938701	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11944897	1.00[ASN][1000 genomes]
rs12502513	0.81[ASN][1000 genomes]
rs12503027	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12510715	0.81[ASN][1000 genomes]
rs12511796	0.89[AFR][1000 genomes]
rs12512484	0.90[EUR][1000 genomes]
rs13107989	1.00[ASN][1000 genomes]
rs13108082	0.86[ASN][1000 genomes]
rs13111887	0.86[ASN][1000 genomes]
rs13122119	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13148395	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13149411	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13149923	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2301817	1.00[ASN][1000 genomes]
rs2301818	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2301819	0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2359194	0.81[ASN][1000 genomes]
rs3188939	1.00[ASN][1000 genomes]
rs34219101	0.86[ASN][1000 genomes]
rs34335938	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34379427	0.90[EUR][1000 genomes]
rs34463709	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34481892	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34860182	0.83[EUR][1000 genomes]
rs34953654	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34959511	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34990775	0.93[EUR][1000 genomes]
rs35170004	0.93[ASN][1000 genomes]
rs35680216	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3857171	0.81[ASN][1000 genomes]
rs3892490	0.86[ASN][1000 genomes]
rs3894945	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4234788	0.86[ASN][1000 genomes]
rs4234791	0.87[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs4234793	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4544710	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4689056	0.93[EUR][1000 genomes]
rs4689560	0.90[EUR][1000 genomes]
rs4689563	0.93[ASN][1000 genomes]
rs4689564	0.93[ASN][1000 genomes]
rs4689565	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4689566	0.81[ASN][1000 genomes]
rs4689567	0.81[ASN][1000 genomes]
rs4689568	0.81[ASN][1000 genomes]
rs4689573	0.81[ASN][1000 genomes]
rs4689575	1.00[ASN][1000 genomes]
rs4689577	0.81[ASN][1000 genomes]
rs4689579	0.93[ASN][1000 genomes]
rs55822670	0.86[ASN][1000 genomes]
rs62289166	1.00[ASN][1000 genomes]
rs6446559	0.86[ASN][1000 genomes]
rs66530709	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs66640699	0.93[ASN][1000 genomes]
rs66841627	0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs66931928	0.93[ASN][1000 genomes]
rs66992702	0.93[ASN][1000 genomes]
rs6811496	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6816660	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6816882	0.86[ASN][1000 genomes]
rs6818744	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6831129	0.86[ASN][1000 genomes]
rs6834102	1.00[ASN][1000 genomes]
rs6840780	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6854776	1.00[ASN][1000 genomes]
rs7655563	0.81[ASN][1000 genomes]
rs7655773	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7658198	0.86[ASN][1000 genomes]
rs7661462	0.86[ASN][1000 genomes]
rs7661952	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7673901	1.00[ASN][1000 genomes]
rs7675524	0.90[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs7685667	1.00[ASN][1000 genomes]
rs7693321	0.81[ASN][1000 genomes]
rs9291126	0.86[ASN][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	nsv878530	chr4:6888932-7058473	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	esv34033	chr4:6973270-7390621	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	esv2757919	chr4:6988148-7269901	Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	esv2759221	chr4:6988148-7269901	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription 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 target site	38 gene(s)	inside rSNPs	diseases
5	nsv428436	chr4:6988148-7269901	Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	esv3358199	chr4:7000551-7004849	Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 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	chr4:6990400-7008800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:6991000-7021800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr4:6991400-7000800	Weak transcription	Colonic Mucosa	Colon
4	chr4:6993200-7006800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr4:6993800-7008400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
6	chr4:6994000-7005200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr4:6994000-7008600	Strong transcription	HUES6 Cell Line	embryonic stem cell
8	chr4:6994000-7035600	Strong transcription	Fetal Stomach	stomach
9	chr4:6994000-7043200	Weak transcription	Right Atrium	heart
10	chr4:6994200-7035400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr4:6994400-7000800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr4:6994400-7000800	Weak transcription	Pancreas	Pancrea
13	chr4:6994400-7001000	Strong transcription	Fetal Muscle Trunk	muscle
14	chr4:6994400-7013400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr4:6994600-7006800	Strong transcription	Stomach Smooth Muscle	stomach
16	chr4:6994600-7021400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr4:6994800-7007600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr4:6995000-7009200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr4:6995000-7020800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr4:6995200-7000800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr4:6995200-7008400	Strong transcription	HUES48 Cell Line	embryonic stem cell
22	chr4:6995200-7008600	Strong transcription	Fetal Intestine Small	intestine
23	chr4:6995400-7000800	Weak transcription	Brain Angular Gyrus	brain
24	chr4:6995400-7005000	Strong transcription	GM12878-XiMat	blood
25	chr4:6995400-7006600	Strong transcription	Duodenum Mucosa	Duodenum
26	chr4:6995400-7007800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
27	chr4:6995400-7008600	Strong transcription	Fetal Intestine Large	intestine
28	chr4:6995400-7013600	Strong transcription	Fetal Thymus	thymus
29	chr4:6995600-7006800	Strong transcription	Rectal Mucosa Donor 29	rectum
30	chr4:6995800-7001600	Strong transcription	Liver	Liver
31	chr4:6995800-7003400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr4:6995800-7004200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
33	chr4:6995800-7006800	Strong transcription	H1 Cell Line	embryonic stem cell
34	chr4:6995800-7008200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr4:6995800-7008400	Strong transcription	HUES64 Cell Line	embryonic stem cell
36	chr4:6995800-7032800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr4:6996000-7004000	Strong transcription	Fetal Lung	lung
38	chr4:6996000-7004200	Weak transcription	Psoas Muscle	Psoas
39	chr4:6996000-7004600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr4:6996000-7006400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr4:6996000-7014800	Strong transcription	Primary B cells from peripheral blood	blood
42	chr4:6996000-7035200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr4:6996200-7000800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
44	chr4:6996400-7007400	Strong transcription	Fetal Brain Female	brain
45	chr4:6996400-7034800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr4:6996600-7001000	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr4:6996600-7005000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr4:6996600-7005600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr4:6996600-7021400	Strong transcription	Brain Germinal Matrix	brain
50	chr4:6997200-7000800	Weak transcription	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links