Variant report

Variant	rs6674374
Chromosome Location	chr1:180408458-180408459
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	USF1	chr1:180408340-180408500	HepG2	liver:	n/a	n/a
2	POLR2A	chr1:180408418-180408500	A549	lung:	n/a	n/a
3	REST	chr1:180408404-180408472	GM12878	blood:	n/a	n/a
4	USF1	chr1:180408388-180408512	GM12878	blood:	n/a	n/a
5	REST	chr1:180408413-180408505	PANC-1	pancreas:	n/a	n/a
6	GABPA	chr1:180408407-180408498	Hela-S3	cervix:	n/a	n/a
7	SRF	chr1:180408392-180408512	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
MIR3121	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs28816398	0.83[AFR][1000 genomes]
rs72716607	0.83[AFR][1000 genomes]
rs74132851	0.83[AFR][1000 genomes]
rs74135185	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003739	chr1:180027760-180483292	Enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv535217	chr1:180027760-180483292	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	nsv527918	chr1:180279710-180443808	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1013716	chr1:180287338-180477072	Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases
5	nsv535221	chr1:180287338-180477072	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases
6	esv2762200	chr1:180300936-180493841	ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	40 gene(s)	inside rSNPs	diseases
7	nsv1003359	chr1:180300936-180727561	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:180365200-180420600	Weak transcription	A549	lung
2	chr1:180379000-180430800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr1:180382400-180410800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr1:180389800-180410400	Weak transcription	Fetal Intestine Large	intestine
5	chr1:180391000-180409000	Weak transcription	Primary T cells from cord blood	blood
6	chr1:180391200-180410200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr1:180392600-180446200	Weak transcription	K562	blood
8	chr1:180394800-180420200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr1:180399000-180420800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr1:180399600-180420400	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr1:180399600-180420400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr1:180401400-180413800	Weak transcription	Small Intestine	intestine
13	chr1:180401400-180420200	Weak transcription	HSMM	muscle
14	chr1:180401400-180430400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr1:180401800-180408800	Weak transcription	Fetal Kidney	kidney
16	chr1:180401800-180410200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr1:180401800-180420800	Weak transcription	NHDF-Ad	bronchial
18	chr1:180402400-180411400	Weak transcription	Spleen	Spleen
19	chr1:180402800-180409000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr1:180403200-180408800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr1:180403400-180408800	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr1:180403400-180410200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr1:180403400-180426200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr1:180403400-180431200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr1:180403400-180448000	Weak transcription	HMEC	breast
26	chr1:180404000-180421800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr1:180404200-180431800	Weak transcription	NHEK	skin
28	chr1:180404400-180469000	Weak transcription	Pancreas	Pancrea
29	chr1:180406200-180420200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr1:180406600-180409600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr1:180406600-180420600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr1:180406800-180410000	Weak transcription	Dnd41	blood
33	chr1:180407400-180408600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr1:180407400-180408800	Weak transcription	GM12878-XiMat	blood
35	chr1:180407600-180411200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr1:180408000-180408600	ZNF genes & repeats	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr1:180408400-180410200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr1:180408400-180411000	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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