Variant report

Variant	rs17787379
Chromosome Location	chr3:24488865-24488866
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:24464738..24466797-chr3:24486080..24488877,2	K562	blood:
2	chr3:24481444..24484786-chr3:24488715..24492560,4	K562	blood:
3	chr3:24358624..24360573-chr3:24487137..24489145,2	MCF-7	breast:
4	chr3:24485939..24488891-chr3:24534407..24536534,2	K562	blood:

Variant related genes	Relation type
ENSG00000228791	Chromatin interaction
ENSG00000151090	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1010163	1.00[JPT][hapmap]
rs13070456	1.00[JPT][hapmap]
rs13070554	1.00[JPT][hapmap]
rs13077437	0.80[GIH][hapmap];1.00[JPT][hapmap]
rs13086758	1.00[JPT][hapmap]
rs13098564	0.80[CEU][hapmap];1.00[JPT][hapmap]
rs2196432	1.00[JPT][hapmap]
rs34833017	0.84[AMR][1000 genomes]
rs35892303	0.81[AMR][1000 genomes]
rs3943744	0.80[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes]
rs4858117	1.00[JPT][hapmap]
rs7632970	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812620	0.87[CEU][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834640	chr3:24339779-24493605	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv834641	chr3:24465862-24633738	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases
3	nsv834642	chr3:24475558-24640593	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17787379	THRB	cis	Esophagus Mucosa	GTEx

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24458800-24490200	Weak transcription	Colon Smooth Muscle	Colon
2	chr3:24477000-24493000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:24477200-24490400	Weak transcription	Aorta	Aorta
4	chr3:24477200-24493000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:24478200-24491400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr3:24478400-24490000	Weak transcription	Duodenum Mucosa	Duodenum
7	chr3:24478400-24493400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr3:24482600-24493000	Weak transcription	Right Atrium	heart
9	chr3:24483000-24490400	Weak transcription	Left Ventricle	heart
10	chr3:24483000-24490400	Weak transcription	Pancreas	Pancrea
11	chr3:24483000-24490400	Weak transcription	Right Ventricle	heart
12	chr3:24486200-24489600	Weak transcription	Liver	Liver
13	chr3:24486400-24490800	Weak transcription	Psoas Muscle	Psoas
14	chr3:24488000-24489400	Weak transcription	Small Intestine	intestine
15	chr3:24488000-24490200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr3:24488000-24491000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr3:24488200-24489200	Weak transcription	Fetal Intestine Large	intestine
18	chr3:24488200-24490200	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr3:24488400-24490200	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr3:24488600-24490400	Weak transcription	Gastric	stomach
21	chr3:24488600-24493000	Weak transcription	K562	blood
22	chr3:24488800-24489000	Enhancers	Fetal Kidney	kidney
23	chr3:24488800-24492200	Enhancers	Stomach Mucosa	stomach
24	chr3:24488800-24497800	Enhancers	Fetal Intestine Small	intestine

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