Variant report

Variant	rs6768139
Chromosome Location	chr3:46622457-46622458
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	chr3:46622263-46622709	H1-hESC	embryonic stem cell:	n/a	n/a
2	POLR2A	chr3:46622254-46622675	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr3:46622431-46622684	H1-hESC	embryonic stem cell:	n/a	n/a
4	POLR2A	chr3:46622210-46622592	H1-hESC	embryonic stem cell:	n/a	n/a
5	POLR2A	chr3:46620465-46622895	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
LRRC2	TF binding region
TDGF1	TF binding region

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1402150	1.00[EUR][1000 genomes]
rs1474195	1.00[EUR][1000 genomes]
rs17078868	1.00[MEX][hapmap]
rs4682818	1.00[EUR][1000 genomes]
rs57865489	0.84[AFR][1000 genomes]
rs6799088	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013306	chr3:46469014-46698538	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46608400-46625400	Weak transcription	Right Atrium	heart
2	chr3:46616800-46626600	Weak transcription	Pancreas	Pancrea
3	chr3:46618800-46624600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:46620400-46622800	Transcr. at gene 5' and 3'	ES-I3 Cell Line	embryonic stem cell
5	chr3:46620400-46622800	Transcr. at gene 5' and 3'	H1 Cell Line	embryonic stem cell
6	chr3:46620400-46622800	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
7	chr3:46620400-46623000	Transcr. at gene 5' and 3'	HUES6 Cell Line	embryonic stem cell
8	chr3:46620400-46624600	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:46620600-46622600	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr3:46620600-46622800	Transcr. at gene 5' and 3'	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr3:46620600-46623400	Transcr. at gene 5' and 3'	HUES48 Cell Line	embryonic stem cell
12	chr3:46620800-46622600	Transcr. at gene 5' and 3'	iPS-15b Cell Line	embryonic stem cell
13	chr3:46620800-46622600	Enhancers	Stomach Mucosa	stomach
14	chr3:46620800-46622800	Transcr. at gene 5' and 3'	H9 Cell Line	embryonic stem cell
15	chr3:46621000-46622600	Transcr. at gene 5' and 3'	iPS-18 Cell Line	embryonic stem cell
16	chr3:46621000-46627200	Weak transcription	Duodenum Mucosa	Duodenum
17	chr3:46621200-46622600	Enhancers	HepG2	liver
18	chr3:46621200-46626200	Weak transcription	Dnd41	blood
19	chr3:46621400-46624000	Weak transcription	Liver	Liver
20	chr3:46621600-46624000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr3:46621800-46622600	Enhancers	Rectal Mucosa Donor 29	rectum
22	chr3:46621800-46622800	Transcr. at gene 5' and 3'	HUES64 Cell Line	embryonic stem cell
23	chr3:46622200-46622600	Transcr. at gene 5' and 3'	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr3:46622200-46622600	Enhancers	Gastric	stomach
25	chr3:46622200-46622800	Flanking Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr3:46622400-46622600	Enhancers	Rectal Mucosa Donor 31	rectum
27	chr3:46622400-46622800	Genic enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr3:46622400-46626600	Weak transcription	Colonic Mucosa	Colon

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