Variant report

Variant	rs3761739
Chromosome Location	chr5:74631501-74631502
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:11)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:11 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA2	chr5:74631450-74631726	SH-SY5Y	brain:	n/a	n/a
2	GATA3	chr5:74631443-74631836	SH-SY5Y	brain:	n/a	n/a
3	EP300	chr5:74631263-74631671	HepG2	liver:	n/a	n/a
4	ARID3A	chr5:74631308-74633082	HepG2	liver:	n/a	n/a
5	HEY1	chr5:74630347-74631695	HepG2	liver:	n/a	n/a
6	FOXA2	chr5:74631301-74631596	HepG2	liver:	n/a	n/a
7	TCF7L2	chr5:74631398-74631714	HepG2	liver:	n/a	n/a
8	TBP	chr5:74631270-74631673	HepG2	liver:	n/a	n/a
9	EP300	chr5:74631241-74631667	HepG2	liver:	n/a	n/a
10	MXI1	chr5:74631296-74631621	HepG2	liver:	n/a	n/a
11	POLR2A	chr5:74630261-74635036	HepG2	liver:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr5:74631027..74633689-chr5:74669899..74673257,3	MCF-7	breast:
2	chr5:74630713..74633733-chr5:74805590..74808087,5	MCF-7	breast:
3	chr5:74623256..74625820-chr5:74629134..74632022,2	K562	blood:

No data

Variant related genes	Relation type
HMGCR	TF binding region
ENSG00000113163	Chromatin interaction
ENSG00000122008	Chromatin interaction
ENSG00000242198	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10515197	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12659791	0.84[EUR][1000 genomes]
rs17244806	0.82[ASN][1000 genomes]
rs2241402	0.81[CHB][hapmap]
rs2303151	0.81[CHB][hapmap];0.93[CHD][hapmap]
rs3733907	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4703669	0.83[ASN][1000 genomes]
rs4704209	0.84[ASN][1000 genomes]
rs55727654	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55926501	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7717396	0.81[CHB][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs3761739	HMGCR	cis	cerebellum	SCAN
rs3761739	COL4A3BP	cis	parietal	SCAN
rs3761739	HMGCR	cis	parietal	SCAN

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:74619400-74632200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr5:74621000-74632200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr5:74626000-74631800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr5:74627800-74631600	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr5:74628000-74631800	Weak transcription	Duodenum Mucosa	Duodenum
6	chr5:74628400-74632000	Weak transcription	Stomach Mucosa	stomach
7	chr5:74629200-74631600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr5:74629400-74631800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr5:74630400-74631600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr5:74631000-74632000	Enhancers	Monocytes-CD14+_RO01746	blood
11	chr5:74631200-74631600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr5:74631200-74631800	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr5:74631200-74631800	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr5:74631200-74631800	Enhancers	Dnd41	blood
15	chr5:74631200-74632000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr5:74631200-74632000	Enhancers	Fetal Intestine Small	intestine
17	chr5:74631400-74631600	Enhancers	Small Intestine	intestine
18	chr5:74631400-74631600	Flanking Active TSS	HepG2	liver
19	chr5:74631400-74631800	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr5:74631400-74631800	Enhancers	H1 Cell Line	embryonic stem cell
21	chr5:74631400-74631800	Enhancers	H9 Cell Line	embryonic stem cell
22	chr5:74631400-74631800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr5:74631400-74631800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr5:74631400-74631800	Enhancers	HUES48 Cell Line	embryonic stem cell
25	chr5:74631400-74631800	Enhancers	iPS-18 Cell Line	embryonic stem cell
26	chr5:74631400-74631800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr5:74631400-74631800	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr5:74631400-74631800	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr5:74631400-74631800	Weak transcription	A549	lung
30	chr5:74631400-74631800	Enhancers	HMEC	breast
31	chr5:74631400-74631800	Enhancers	NHEK	skin
32	chr5:74631400-74631800	Enhancers	NHLF	lung
33	chr5:74631400-74632000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr5:74631400-74632000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr5:74631400-74632000	Enhancers	Liver	Liver
36	chr5:74631400-74632000	Enhancers	Hela-S3	cervix
37	chr5:74631400-74632400	Flanking Active TSS	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links