Variant report

Variant	rs11025022
Chromosome Location	chr11:19138396-19138397
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	TCF3	chr11:19138311-19138956	GM12878	blood:	n/a	n/a
2	TCF12	chr11:19138173-19139257	A549	lung:	n/a	n/a
3	IRF1	chr11:19138327-19138902	K562	blood:	n/a	chr11:19138702-19138711 chr11:19138597-19138611
4	POLR2A	chr11:19138366-19139009	GM12878	blood:	n/a	n/a
5	POLR2A	chr11:19138322-19138982	PANC-1	pancreas:	n/a	n/a
6	MAX	chr11:19138349-19138801	K562	blood:	n/a	n/a
7	POLR2A	chr11:19138335-19139522	HUVEC	blood vessel:	n/a	n/a
8	YY1	chr11:19138371-19139236	HepG2	liver:	n/a	chr11:19139043-19139057
9	HCFC1	chr11:19138204-19139702	Hela-S3	cervix:	n/a	n/a
10	POLR2A	chr11:19138353-19139395	U87	brain:	n/a	n/a
11	ZBTB7A	chr11:19138236-19139365	ECC-1	luminal epithelium:	n/a	chr11:19139074-19139083 chr11:19139350-19139357
12	POLR2A	chr11:19137874-19139543	GM12891	blood:	n/a	n/a
13	POLR2A	chr11:19138384-19138532	A549	lung:	n/a	n/a
14	ELK1	chr11:19138362-19138708	K562	blood:	n/a	n/a
15	POLR2A	chr11:19137842-19139289	GM12892	blood:	n/a	n/a
16	CTCF	chr11:19138340-19138490	Caco-2	colon:	n/a	n/a
17	POLR2A	chr11:19138329-19138969	GM12892	blood:	n/a	n/a
18	MAZ	chr11:19137866-19139249	GM12878	blood:	n/a	n/a
19	POLR2A	chr11:19137995-19139315	GM19193	blood:	n/a	n/a
20	MAX	chr11:19138323-19138821	H1-hESC	embryonic stem cell:	n/a	n/a
21	ZBTB7A	chr11:19138325-19139285	ECC-1	luminal epithelium:	n/a	chr11:19139074-19139083
22	SIN3AK20	chr11:19138294-19139629	MCF-7	breast:	n/a	n/a
23	MAX	chr11:19138297-19139352	H1-hESC	embryonic stem cell:	n/a	n/a
24	POLR2A	chr11:19138348-19138957	K562	blood:	n/a	n/a
25	POLR2A	chr11:19138347-19139458	U87	brain:	n/a	n/a
26	RCOR1	chr11:19138310-19139447	GM12878	blood:	n/a	n/a
27	SP1	chr11:19138373-19138796	HepG2	liver:	n/a	chr11:19138599-19138610 chr11:19138600-19138609 chr11:19138545-19138557 chr11:19138600-19138614 chr11:19138599-19138611 chr11:19138484-19138493
28	POLR2A	chr11:19138364-19139538	Hela-S3	cervix:	n/a	n/a
29	CTCF	chr11:19138340-19138490	GM12875	blood:	n/a	n/a
30	CEBPB	chr11:19138318-19138927	Hela-S3	cervix:	n/a	n/a
31	POLR2A	chr11:19138317-19139098	SK-N-MC	brain:	n/a	n/a
32	HA-E2F1	chr11:19138345-19139452	MCF-7	breast:	n/a	n/a
33	POLR2A	chr11:19138390-19139500	HUVEC	blood vessel:	n/a	n/a
34	TBP	chr11:19138373-19139227	K562	blood:	n/a	n/a
35	NFYA	chr11:19138210-19139087	Hela-S3	cervix:	n/a	chr11:19138619-19138637
36	ELF1	chr11:19138357-19139434	GM12878	blood:	n/a	chr11:19139095-19139107
37	ELF1	chr11:19138318-19139412	MCF-7	breast:	n/a	chr11:19139095-19139107
38	SMARCB1	chr11:19137934-19139316	Hela-S3	cervix:	n/a	n/a
39	CTCF	chr11:19138360-19138510	GM12878	blood:	n/a	n/a
40	PBX3	chr11:19138370-19138993	A549	lung:	n/a	n/a
41	SP1	chr11:19138302-19138936	A549	lung:	n/a	chr11:19138599-19138610 chr11:19138600-19138609 chr11:19138545-19138557 chr11:19138600-19138614 chr11:19138599-19138611 chr11:19138484-19138493
42	MAX	chr11:19138367-19139191	ECC-1	luminal epithelium:	n/a	n/a
43	RCOR1	chr11:19138241-19139444	K562	blood:	n/a	n/a
44	EP300	chr11:19137845-19138404	GM12878	blood:	n/a	chr11:19138118-19138132 chr11:19138087-19138100
45	FOXM1	chr11:19138337-19138830	GM12878	blood:	n/a	n/a
46	PAX5	chr11:19138357-19138935	GM12878	blood:	n/a	chr11:19138700-19138709
47	POLR2A	chr11:19138270-19139220	Raji	blood:	n/a	n/a
48	POLR2A	chr11:19138379-19139512	H1-hESC	embryonic stem cell:	n/a	n/a
49	POLR2A	chr11:19138361-19139237	Hela-S3	cervix:	n/a	n/a
50	PBX3	chr11:19138337-19139015	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr11:19137492..19139036-chr11:19169967..19172250,2	MCF-7	breast:
2	chr11:19081397..19083267-chr11:19138143..19140482,2	MCF-7	breast:
3	chr11:19138213..19140336-chr11:19296347..19298663,2	MCF-7	breast:

Variant related genes	Relation type
ZDHHC13	TF binding region
ENSG00000183695	Chromatin interaction
ENSG00000177054	Chromatin interaction
ENSG00000254544	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11025027	1.00[EUR][1000 genomes]
rs11608243	0.85[CHD][hapmap]
rs12223951	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2303438	1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3740964	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4757773	1.00[LWK][hapmap]
rs7930821	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7938838	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7941959	1.00[EUR][1000 genomes]
rs7942071	1.00[EUR][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	nsv1040805	chr11:19037871-19892803	Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	nsv540957	chr11:19037871-19892803	Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:19125000-19138600	Weak transcription	Gastric	stomach
2	chr11:19137800-19138400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
3	chr11:19137800-19138400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
4	chr11:19137800-19138400	Bivalent Enhancer	Placenta	Placenta
5	chr11:19137800-19138400	Enhancers	Left Ventricle	heart
6	chr11:19137800-19138400	Bivalent Enhancer	Lung	lung
7	chr11:19137800-19138400	Flanking Active TSS	GM12878-XiMat	blood
8	chr11:19137800-19138400	Flanking Bivalent TSS/Enh	HepG2	liver
9	chr11:19138000-19138400	Flanking Active TSS	H1 Cell Line	embryonic stem cell
10	chr11:19138000-19138400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr11:19138000-19138400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr11:19138000-19138400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
13	chr11:19138000-19138400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
14	chr11:19138000-19138400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr11:19138000-19138400	Flanking Active TSS	Primary B cells from peripheral blood	blood
16	chr11:19138000-19138400	Flanking Active TSS	Primary T cells fromperipheralblood	blood
17	chr11:19138000-19138400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
18	chr11:19138000-19138400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
19	chr11:19138000-19138400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
20	chr11:19138000-19138400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
21	chr11:19138000-19138400	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr11:19138000-19138400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr11:19138000-19138400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr11:19138000-19138400	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
25	chr11:19138000-19138400	Bivalent/Poised TSS	Adipose Nuclei	Adipose
26	chr11:19138000-19138400	Flanking Active TSS	Brain Anterior Caudate	brain
27	chr11:19138000-19138400	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
28	chr11:19138000-19138400	Flanking Active TSS	Duodenum Mucosa	Duodenum
29	chr11:19138000-19138400	Enhancers	Esophagus	oesophagus
30	chr11:19138000-19138400	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
31	chr11:19138000-19138400	Enhancers	Fetal Heart	heart
32	chr11:19138000-19138400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
33	chr11:19138000-19138400	Enhancers	Pancreas	Pancrea
34	chr11:19138000-19138400	Enhancers	Placenta Amnion	Placenta Amnion
35	chr11:19138000-19138400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
36	chr11:19138000-19138400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
37	chr11:19138000-19138400	Enhancers	Spleen	Spleen
38	chr11:19138000-19138400	Flanking Active TSS	Hela-S3	cervix
39	chr11:19138000-19138400	Flanking Active TSS	K562	blood
40	chr11:19138000-19138600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
41	chr11:19138000-19138600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
42	chr11:19138000-19138600	Enhancers	Stomach Mucosa	stomach
43	chr11:19138000-19138600	Flanking Active TSS	Dnd41	blood
44	chr11:19138000-19138600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
45	chr11:19138000-19139200	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr11:19138000-19139200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr11:19138000-19139200	Active TSS	Rectal Smooth Muscle	rectum
48	chr11:19138000-19139200	Active TSS	Osteobl	bone
49	chr11:19138000-19139400	Active TSS	Colon Smooth Muscle	Colon
50	chr11:19138000-19139400	Active TSS	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links