Variant report

Variant	rs35445446
Chromosome Location	chr6:33716745-33716746
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	EP300	chr6:33715924-33717106	ECC-1	luminal epithelium:	n/a	chr6:33716590-33716599
2	MAX	chr6:33716435-33716992	ECC-1	luminal epithelium:	n/a	chr6:33716711-33716720 chr6:33716544-33716553
3	ESR1	chr6:33716537-33716880	ECC-1	luminal epithelium:	n/a	n/a
4	ESR1	chr6:33716484-33716912	ECC-1	luminal epithelium:	n/a	n/a
5	TCF12	chr6:33716344-33717120	ECC-1	luminal epithelium:	n/a	n/a
6	MAX	chr6:33716489-33717016	ECC-1	luminal epithelium:	n/a	chr6:33716711-33716720 chr6:33716544-33716553
7	EP300	chr6:33716432-33716976	ECC-1	luminal epithelium:	n/a	chr6:33716590-33716599
8	TEAD4	chr6:33716438-33716915	ECC-1	luminal epithelium:	n/a	n/a
9	SIN3A	chr6:33716738-33716880	H1-hESC	embryonic stem cell:	n/a	n/a
10	USF1	chr6:33716569-33716787	H1-hESC	embryonic stem cell:	n/a	n/a
11	USF1	chr6:33716574-33716842	H1-hESC	embryonic stem cell:	n/a	n/a
12	TCF12	chr6:33716062-33717029	ECC-1	luminal epithelium:	n/a	chr6:33716126-33716136
13	ESR1	chr6:33716461-33716926	ECC-1	luminal epithelium:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:33715170..33717899-chr6:33734548..33736786,2	MCF-7	breast:
2	chr6:33716339..33718019-chr6:33719542..33721066,2	K562	blood:
3	chr6:33708535..33711845-chr6:33715070..33719242,6	MCF-7	breast:

Variant related genes	Relation type
IP6K3	TF binding region

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10456420	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10456421	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947418	0.86[AFR][1000 genomes]
rs11755257	0.86[AFR][1000 genomes]
rs11757379	0.86[AFR][1000 genomes]
rs11757612	0.86[AFR][1000 genomes]
rs11758330	0.86[AFR][1000 genomes]
rs12153877	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12189725	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12192035	0.96[EUR][1000 genomes]
rs12192087	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12193658	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195409	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12198383	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12199132	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12200154	0.86[AFR][1000 genomes]
rs12204620	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12204992	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12205398	0.87[AFR][1000 genomes]
rs12211490	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs12211554	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs12211565	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs12215329	0.91[EUR][1000 genomes]
rs12660955	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs12662447	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13195171	0.86[AFR][1000 genomes]
rs13200063	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs13206228	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs13207666	0.87[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs13213889	0.91[EUR][1000 genomes]
rs2227925	0.86[AFR][1000 genomes]
rs2274459	0.92[EUR][1000 genomes]
rs2296749	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs34139049	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs34339105	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs34460651	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34472165	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs34778247	1.00[ASN][1000 genomes]
rs34869648	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs34884883	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs35095444	0.91[ASN][1000 genomes]
rs35274562	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs35328423	0.83[EUR][1000 genomes]
rs35366046	0.86[EUR][1000 genomes]
rs35646598	1.00[EUR][1000 genomes]
rs35721478	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs35797388	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs35964955	0.92[ASN][1000 genomes]
rs36122085	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs3793080	0.90[EUR][1000 genomes]
rs3806107	0.90[EUR][1000 genomes]
rs3818532	1.00[ASN][1000 genomes]
rs66617522	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66670017	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs68168863	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs6925337	0.89[EUR][1000 genomes]
rs71565393	0.86[AFR][1000 genomes]
rs72880510	0.91[ASN][1000 genomes]
rs729376	0.87[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs751095	0.92[EUR][1000 genomes]
rs755239	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs877187	0.93[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	nsv885772	chr6:33638180-33767727	Bivalent Enhancer Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33712000-33717000	Enhancers	H1 Cell Line	embryonic stem cell
2	chr6:33712000-33717800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:33712400-33719600	Weak transcription	Gastric	stomach
4	chr6:33714200-33718400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:33714200-33719200	Weak transcription	Pancreas	Pancrea
6	chr6:33714400-33718000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr6:33714600-33716800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr6:33714800-33717000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr6:33714800-33717000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
10	chr6:33714800-33718000	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr6:33714800-33718200	Weak transcription	Right Atrium	heart
12	chr6:33714800-33718400	Weak transcription	Esophagus	oesophagus
13	chr6:33714800-33718400	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr6:33714800-33718400	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr6:33714800-33718600	Weak transcription	Colonic Mucosa	Colon
16	chr6:33714800-33718800	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr6:33714800-33719200	Weak transcription	Lung	lung
18	chr6:33714800-33720600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:33714800-33721000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr6:33714800-33722600	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr6:33715000-33717000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr6:33715000-33718600	Weak transcription	Spleen	Spleen
23	chr6:33715000-33718600	Weak transcription	HMEC	breast
24	chr6:33715000-33720600	Enhancers	Fetal Muscle Leg	muscle
25	chr6:33715200-33718200	Weak transcription	NHLF	lung
26	chr6:33715200-33718400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr6:33715200-33737800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr6:33715400-33718600	Weak transcription	Right Ventricle	heart
29	chr6:33715600-33718000	Weak transcription	Liver	Liver
30	chr6:33715600-33718200	Weak transcription	Fetal Lung	lung
31	chr6:33715600-33718600	Weak transcription	Fetal Intestine Small	intestine
32	chr6:33715600-33719400	Weak transcription	Left Ventricle	heart
33	chr6:33715600-33719600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr6:33715600-33729400	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr6:33715800-33717600	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr6:33715800-33717600	Weak transcription	HSMMtube	muscle
37	chr6:33715800-33718200	Weak transcription	Fetal Intestine Large	intestine
38	chr6:33716000-33717600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr6:33716000-33718200	Enhancers	HSMM	muscle
40	chr6:33716200-33716800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr6:33716200-33720400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr6:33716400-33717200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:33716400-33717800	Enhancers	Fetal Muscle Trunk	muscle
44	chr6:33716400-33720600	Enhancers	Placenta	Placenta
45	chr6:33716600-33717000	Enhancers	iPS-18 Cell Line	embryonic stem cell
46	chr6:33716600-33717200	Enhancers	Fetal Thymus	thymus
47	chr6:33716600-33717200	Weak transcription	Psoas Muscle	Psoas
48	chr6:33716600-33720600	Enhancers	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links