Variant report

Variant	rs56187614
Chromosome Location	chr11:73112676-73112677
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:33)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:33 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:73112261-73112767	PANC-1	pancreas:	n/a	n/a
2	POLR2A	chr11:73112182-73114764	HL-60	blood:	n/a	n/a
3	POLR2A	chr11:73112184-73113346	GM12892	blood:	n/a	n/a
4	POLR2A	chr11:73112311-73115213	GM12878	blood:	n/a	n/a
5	POLR2A	chr11:73112209-73114863	GM12878	blood:	n/a	n/a
6	POLR2A	chr11:73111228-73115333	GM12878	blood:	n/a	n/a
7	POLR2A	chr11:73112323-73114114	GM12891	blood:	n/a	n/a
8	POLR2A	chr11:73112622-73112783	GM12878	blood:	n/a	n/a
9	POLR2A	chr11:73112378-73112817	HepG2	liver:	n/a	n/a
10	POLR2A	chr11:73112216-73112882	PANC-1	pancreas:	n/a	n/a
11	NFATC1	chr11:73112305-73112701	GM12878	blood:	n/a	n/a
12	POLR2A	chr11:73112637-73112956	GM12878	blood:	n/a	n/a
13	POLR2A	chr11:73112278-73112861	GM12891	blood:	n/a	n/a
14	MTA3	chr11:73112362-73112907	GM12878	blood:	n/a	n/a
15	POLR2A	chr11:73112393-73115451	Hela-S3	cervix:	n/a	n/a
16	POLR2A	chr11:73112599-73112970	H1-neurons	neurons:	n/a	n/a
17	PML	chr11:73112368-73112738	GM12878	blood:	n/a	n/a
18	POLR2A	chr11:73112212-73112775	GM12878	blood:	n/a	n/a
19	POLR2A	chr11:73112271-73115418	A549	lung:	n/a	n/a
20	POLR2A	chr11:73112300-73114898	K562	blood:	n/a	n/a
21	POLR2A	chr11:73112216-73113273	GM12891	blood:	n/a	n/a
22	POLR2A	chr11:73112614-73112958	HCT-116	colon:	n/a	n/a
23	POLR2A	chr11:73111226-73115898	GM12891	blood:	n/a	n/a
24	POLR2A	chr11:73112597-73113503	HUVEC	blood vessel:	n/a	n/a
25	POLR2A	chr11:73112673-73112693	Hela-S3	cervix:	n/a	n/a
26	POLR2A	chr11:73112342-73112898	Hela-S3	cervix:	n/a	n/a
27	POLR2A	chr11:73112150-73114968	PFSK-1	brain:	n/a	n/a
28	POLR2A	chr11:73112234-73113258	GM12892	blood:	n/a	n/a
29	POLR2A	chr11:73112198-73114117	SK-N-MC	brain:	n/a	n/a
30	POLR2A	chr11:73112513-73112841	K562	blood:	n/a	n/a
31	POLR2A	chr11:73112523-73112832	MCF-7	breast:	n/a	n/a
32	POLR2A	chr11:73112309-73114204	HL-60	blood:	n/a	n/a
33	POLR2A	chr11:73112255-73113466	GM12892	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr11:73112642..73115479-chr11:73176315..73178999,2	MCF-7	breast:
2	chr11:73112459..73114000-chr11:73375360..73377325,2	MCF-7	breast:
3	chr11:73112653..73117037-chr11:73375086..73378284,4	MCF-7	breast:
4	chr11:73109121..73112181-chr11:73112375..73115305,3	MCF-7	breast:
5	chr11:73111799..73116221-chr11:73117237..73120913,5	K562	blood:
6	chr11:73034868..73037112-chr11:73112469..73114530,2	MCF-7	breast:
7	chr11:73106551..73108996-chr11:73110299..73113242,3	K562	blood:
8	chr11:73111818..73115266-chr11:73122319..73124692,3	K562	blood:
9	chr11:73099755..73102272-chr11:73109128..73112969,3	K562	blood:
10	chr11:73112531..73114097-chr11:73119091..73120983,2	MCF-7	breast:
11	chr11:73086932..73087772-chr11:73112460..73113458,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000256448	TF binding region
ENSG00000256928	Chromatin interaction
ENSG00000252732	Chromatin interaction
ENSG00000054967	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11823289	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12146658	0.93[AMR][1000 genomes]
rs17851510	0.81[AFR][1000 genomes]
rs34304845	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55727935	0.81[AMR][1000 genomes]
rs55940558	0.81[AMR][1000 genomes]
rs56045329	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56057109	0.81[AMR][1000 genomes]
rs56135026	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56193465	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56205113	0.81[AMR][1000 genomes]
rs56260110	0.81[AMR][1000 genomes]
rs56262837	0.81[AMR][1000 genomes]
rs56332879	0.81[AMR][1000 genomes]
rs56407713	0.81[AMR][1000 genomes]
rs56701090	0.81[AMR][1000 genomes]
rs56834522	0.91[EUR][1000 genomes]
rs57288336	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs57727431	0.83[EUR][1000 genomes]
rs58062099	0.91[AFR][1000 genomes]
rs58619954	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs58658035	1.00[EUR][1000 genomes]
rs58850636	0.81[AMR][1000 genomes]
rs59199852	0.81[AMR][1000 genomes]
rs59212255	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs59250186	0.81[AMR][1000 genomes]
rs59912809	0.81[AMR][1000 genomes]
rs60578483	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61236919	0.81[AMR][1000 genomes]
rs61361454	0.81[AMR][1000 genomes]
rs61527032	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6592525	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7105000	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7105567	0.81[AMR][1000 genomes]
rs7105802	0.81[AMR][1000 genomes]
rs7105824	0.81[AMR][1000 genomes]
rs7109601	0.81[EUR][1000 genomes]
rs7119049	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7120131	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7120967	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7128786	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7128980	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7131044	0.81[AMR][1000 genomes]
rs7924394	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7928848	0.85[AMR][1000 genomes]
rs7931840	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7932197	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7933274	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7945735	0.81[AMR][1000 genomes]
rs7945984	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7949882	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1821041	chr11:72937162-73113080	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
2	esv3395161	chr11:73084616-73461577	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:73095200-73116200	Weak transcription	Liver	Liver
2	chr11:73096200-73130200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr11:73097200-73117600	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr11:73097400-73113000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr11:73098600-73126000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr11:73098600-73132400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr11:73098800-73113000	Weak transcription	Fetal Brain Female	brain
8	chr11:73099200-73139800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr11:73099200-73141000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr11:73099400-73113200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr11:73099600-73119200	Weak transcription	Fetal Lung	lung
12	chr11:73100000-73116600	Weak transcription	Pancreas	Pancrea
13	chr11:73100000-73118400	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr11:73100200-73117400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr11:73100600-73118600	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr11:73100800-73115800	Weak transcription	HMEC	breast
17	chr11:73101000-73116200	Weak transcription	Brain Angular Gyrus	brain
18	chr11:73101000-73116400	Weak transcription	Brain Substantia Nigra	brain
19	chr11:73101200-73124800	Weak transcription	Psoas Muscle	Psoas
20	chr11:73103600-73118400	Weak transcription	Esophagus	oesophagus
21	chr11:73103800-73116600	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr11:73104000-73116200	Weak transcription	Brain Anterior Caudate	brain
23	chr11:73104600-73113200	Strong transcription	Primary monocytes fromperipheralblood	blood
24	chr11:73104600-73113200	Strong transcription	Monocytes-CD14+_RO01746	blood
25	chr11:73104600-73114400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr11:73104600-73123400	Strong transcription	Fetal Stomach	stomach
27	chr11:73104800-73112800	Weak transcription	Brain Germinal Matrix	brain
28	chr11:73104800-73114000	Strong transcription	Primary neutrophils fromperipheralblood	blood
29	chr11:73104800-73122600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr11:73105200-73116400	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr11:73105200-73116800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr11:73105600-73116000	Weak transcription	Colonic Mucosa	Colon
33	chr11:73105800-73116600	Weak transcription	Primary T helper cells fromperipheralblood	blood
34	chr11:73106000-73114600	Weak transcription	HepG2	liver
35	chr11:73106200-73116400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr11:73106400-73113400	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr11:73106400-73116600	Weak transcription	Gastric	stomach
38	chr11:73106400-73120200	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr11:73107000-73113800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
40	chr11:73107200-73114800	Weak transcription	Brain Cingulate Gyrus	brain
41	chr11:73107200-73116200	Weak transcription	Lung	lung
42	chr11:73107800-73114000	Weak transcription	Brain Hippocampus Middle	brain
43	chr11:73107800-73115800	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr11:73107800-73116200	Weak transcription	Duodenum Mucosa	Duodenum
45	chr11:73107800-73117600	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr11:73108200-73115600	Weak transcription	Hela-S3	cervix
47	chr11:73108200-73116200	Weak transcription	Primary T helper cells PMA-I stimulated	--
48	chr11:73108400-73115800	Weak transcription	Aorta	Aorta
49	chr11:73108400-73116400	Weak transcription	Primary hematopoietic stem cells	blood
50	chr11:73108600-73113400	Weak transcription	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links