Variant report

Variant	rs17656763
Chromosome Location	chr4:48863262-48863263
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	chr4:48862350-48865447	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr4:48853235..48855592-chr4:48860236..48864497,3	MCF-7	breast:
2	chr4:48783503..48785645-chr4:48863021..48865080,2	MCF-7	breast:
3	chr4:48862851..48865784-chr4:48884723..48887077,2	MCF-7	breast:
4	chr4:48853189..48856829-chr4:48863048..48867064,3	K562	blood:

Variant related genes	Relation type
OCIAD1-AS1	TF binding region
ENSG00000109180	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10938546	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12509766	1.00[CHB][hapmap]
rs1517675	1.00[CHB][hapmap]
rs17610725	1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17656727	1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1824039	0.85[EUR][1000 genomes]
rs1824040	0.85[EUR][1000 genomes]
rs2304387	1.00[CHB][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2354947	1.00[ASN][1000 genomes]
rs2354948	1.00[ASN][1000 genomes]
rs45463191	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62310925	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6447674	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs73815372	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs746513	1.00[CHB][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002674	chr4:48507608-49032909	Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv537087	chr4:48507608-49032909	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1010923	chr4:48575156-49083089	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv537088	chr4:48575156-49083089	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv1013762	chr4:48580484-49032909	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv537089	chr4:48580484-49032909	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
7	nsv1010381	chr4:48701525-49309842	Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
8	nsv1003718	chr4:48771947-49083089	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
9	nsv916809	chr4:48784318-49083302	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
10	nsv1011910	chr4:48784332-49154757	ZNF genes & repeats Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
11	nsv879010	chr4:48794403-49061141	Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
12	nsv1008733	chr4:48827603-48971172	Enhancers Genic enhancers Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	nsv427680	chr4:48829607-49660117	ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:48834000-48864600	Weak transcription	Stomach Mucosa	stomach
2	chr4:48835000-48864400	Strong transcription	HSMM	muscle
3	chr4:48835200-48863800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr4:48835200-48864200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr4:48835400-48863400	Strong transcription	HUES48 Cell Line	embryonic stem cell
6	chr4:48835600-48864000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr4:48836000-48863600	Strong transcription	HUES64 Cell Line	embryonic stem cell
8	chr4:48836200-48863600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr4:48838000-48864400	Weak transcription	Esophagus	oesophagus
10	chr4:48838200-48866800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr4:48838400-48863400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr4:48841000-48865400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr4:48845400-48863800	Weak transcription	Hela-S3	cervix
14	chr4:48848200-48864600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr4:48848200-48864600	Weak transcription	Fetal Heart	heart
16	chr4:48848200-48880000	Weak transcription	Brain Substantia Nigra	brain
17	chr4:48852000-48863600	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr4:48852000-48863800	Strong transcription	Fetal Intestine Large	intestine
19	chr4:48853200-48864200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr4:48854200-48864200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr4:48854400-48864800	Weak transcription	HSMMtube	muscle
22	chr4:48854400-48865800	Weak transcription	Brain Angular Gyrus	brain
23	chr4:48855600-48863800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr4:48856400-48865600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr4:48856800-48864600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr4:48857000-48864200	Weak transcription	Fetal Brain Male	brain
27	chr4:48857000-48866000	Weak transcription	Colon Smooth Muscle	Colon
28	chr4:48858000-48863400	Strong transcription	Primary B cells from peripheral blood	blood
29	chr4:48858000-48863800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr4:48858400-48864200	Strong transcription	Liver	Liver
31	chr4:48858800-48864400	Strong transcription	Adipose Nuclei	Adipose
32	chr4:48859200-48863600	Strong transcription	Rectal Mucosa Donor 29	rectum
33	chr4:48859200-48864400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr4:48859400-48863600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr4:48859600-48863400	Strong transcription	Muscle Satellite Cultured Cells	--
36	chr4:48859800-48863600	Strong transcription	H1 Cell Line	embryonic stem cell
37	chr4:48860000-48863600	Strong transcription	GM12878-XiMat	blood
38	chr4:48860200-48865200	Weak transcription	Lung	lung
39	chr4:48860400-48864000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr4:48860400-48864600	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr4:48860400-48882200	Weak transcription	Gastric	stomach
42	chr4:48860400-48901400	Weak transcription	Brain Hippocampus Middle	brain
43	chr4:48860600-48864200	Weak transcription	K562	blood
44	chr4:48860600-48864800	Weak transcription	Right Ventricle	heart
45	chr4:48860600-48865200	Weak transcription	NHLF	lung
46	chr4:48860600-48868600	Weak transcription	Fetal Kidney	kidney
47	chr4:48860600-48872600	Weak transcription	Brain Cingulate Gyrus	brain
48	chr4:48860600-48873600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr4:48860800-48863400	Weak transcription	Fetal Muscle Trunk	muscle
50	chr4:48860800-48863600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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