Variant report

Variant	rs73145108
Chromosome Location	chr3:24726341-24726342
allele	C/T
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	ATF2	chr3:24725933-24726511	H1-hESC	embryonic stem cell:	n/a	n/a
2	ATF2	chr3:24726039-24726569	H1-hESC	embryonic stem cell:	n/a	n/a
3	JUND	chr3:24725995-24726579	H1-hESC	embryonic stem cell:	n/a	n/a
4	TCF12	chr3:24726223-24726459	H1-hESC	embryonic stem cell:	n/a	n/a
5	KAP1	chr3:24725876-24726450	U2OS	brain:	n/a	n/a
6	SETDB1	chr3:24726087-24726524	U2OS	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:24723921..24726811-chr3:24729010..24731605,2	MCF-7	breast:
2	chr3:23960325..23963916-chr3:24723703..24727555,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000237838	TF binding region
ENSG00000237838	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs4449259	1.00[AMR][1000 genomes]
rs4858124	1.00[AMR][1000 genomes]
rs4858642	1.00[AMR][1000 genomes]
rs60729703	1.00[AMR][1000 genomes]
rs73145105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73145167	1.00[AMR][1000 genomes]
rs73145173	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	esv2757862	chr3:24652513-24942926	Enhancers Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759135	chr3:24652513-24942926	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1005314	chr3:24690692-24813960	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv589950	chr3:24694021-24816974	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv2756981	chr3:24725003-24813960	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv967212	chr3:24725627-24759272	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24724600-24726600	Enhancers	ES-I3 Cell Line	embryonic stem cell
2	chr3:24725200-24726600	Enhancers	Psoas Muscle	Psoas
3	chr3:24725200-24726600	Enhancers	Skeletal Muscle Male	skeletal muscle
4	chr3:24725200-24726600	Enhancers	Skeletal Muscle Female	skeletal muscle
5	chr3:24725200-24726800	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr3:24725200-24727800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:24725400-24726600	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr3:24725400-24727400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr3:24725400-24727600	Weak transcription	Colon Smooth Muscle	Colon
10	chr3:24725400-24727600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr3:24725400-24727600	Weak transcription	NHDF-Ad	bronchial
12	chr3:24725400-24727800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:24725400-24727800	Weak transcription	Primary hematopoietic stem cells	blood
14	chr3:24725400-24728000	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr3:24725400-24728000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr3:24725400-24728200	Weak transcription	NHLF	lung
17	chr3:24725400-24730000	Weak transcription	Stomach Smooth Muscle	stomach
18	chr3:24725400-24730400	Weak transcription	Rectal Smooth Muscle	rectum
19	chr3:24725400-24731400	Weak transcription	Aorta	Aorta
20	chr3:24725800-24726600	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr3:24725800-24726600	Enhancers	iPS-20b Cell Line	embryonic stem cell
22	chr3:24726000-24726400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr3:24726000-24726400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr3:24726000-24726400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
25	chr3:24726000-24726600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr3:24726000-24726600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr3:24726000-24726600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr3:24726000-24726600	Enhancers	H9 Cell Line	embryonic stem cell
29	chr3:24726000-24726600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr3:24726000-24726600	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
31	chr3:24726000-24726600	Enhancers	Pancreas	Pancrea
32	chr3:24726000-24730000	Weak transcription	A549	lung
33	chr3:24726200-24726400	Bivalent Enhancer	NH-A	brain
34	chr3:24726200-24726600	Enhancers	H1 Cell Line	embryonic stem cell
35	chr3:24726200-24726600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
36	chr3:24726200-24728200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links