Variant report

Variant	rs555932588
Chromosome Location	chr1:228193379-228193380
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZNF263	chr1:228193357-228193722	HEK293-T-REx	kidney:	n/a	chr1:228193508-228193517
2	SUZ12	chr1:228193119-228194429	H1-hESC	embryonic stem cell:	n/a	n/a
3	CTBP2	chr1:228191942-228194483	H1-hESC	embryonic stem cell:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:228191350..228193786-chr1:228257693..228259549,2	MCF-7	breast:
2	chr1:228192133..228194243-chr1:228287809..228289393,2	K562	blood:
3	chr1:228190036..228193608-chr1:228195528..228197492,3	MCF-7	breast:
4	chr1:228191780..228193444-chr1:228317568..228320348,2	MCF-7	breast:
5	chr1:228184192..228186220-chr1:228191479..228194171,2	MCF-7	breast:
6	chr1:228191215..228193545-chr1:228195515..228198090,2	MCF-7	breast:
7	chr1:228192379..228197446-chr1:228268248..228273367,9	MCF-7	breast:

No data

Variant related genes	Relation type
WNT3A	TF binding region
ENSG00000143761	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010605	chr1:227770415-228332690	Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	esv32853	chr1:227880116-228806209	Enhancers Genic enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
3	nsv427952	chr1:227881664-228308629	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv826908	chr1:227895386-228691100	Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
5	nsv516409	chr1:228035131-228296745	Enhancers Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	nsv523935	chr1:228038124-228681749	Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	137 gene(s)	inside rSNPs	diseases
7	nsv947387	chr1:228140028-228206630	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv832803	chr1:228155118-228313681	Transcr. at gene 5' and 3' Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
9	nsv873252	chr1:228174528-228371551	Strong transcription Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
10	nsv945349	chr1:228186556-228245135	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
11	nsv826953	chr1:228191929-228196867	Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
12	esv3345664	chr1:228193354-228196202	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:228191000-228194400	Weak transcription	Right Atrium	heart
2	chr1:228191800-228193800	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
3	chr1:228191800-228194000	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
4	chr1:228191800-228194200	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr1:228192000-228194000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr1:228192000-228194600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
7	chr1:228192000-228194600	Bivalent Enhancer	Fetal Stomach	stomach
8	chr1:228192200-228193600	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
9	chr1:228192200-228194000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr1:228192200-228196800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
11	chr1:228192400-228193800	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
12	chr1:228192400-228195200	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
13	chr1:228192600-228193400	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr1:228192600-228194200	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr1:228192600-228194400	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr1:228192800-228193600	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr1:228192800-228194800	Bivalent Enhancer	Placenta	Placenta
18	chr1:228193000-228193400	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
19	chr1:228193000-228193400	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr1:228193000-228193400	Bivalent/Poised TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr1:228193000-228193600	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
22	chr1:228193200-228193400	Flanking Bivalent TSS/Enh	ES-I3 Cell Line	embryonic stem cell
23	chr1:228193200-228193400	Bivalent Enhancer	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr1:228193200-228193400	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
25	chr1:228193200-228193400	Flanking Bivalent TSS/Enh	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr1:228193200-228193600	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
27	chr1:228193200-228193600	Bivalent Enhancer	Brain Dorsolateral Prefrontal Cortex	brain
28	chr1:228193200-228194200	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
29	chr1:228193200-228194200	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links