Variant report

Variant	rs11237236
Chromosome Location	chr11:77312790-77312791
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:77300395..77303084-chr11:77310966..77314661,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178301	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10899394	0.83[EUR][1000 genomes]
rs11237220	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs11237225	0.88[ASN][1000 genomes]
rs11237244	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11237249	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11823651	0.81[ASN][1000 genomes]
rs2032395	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6592738	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048360	chr11:76900813-77387933	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv541089	chr11:76900813-77387933	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1049603	chr11:76900813-77520411	Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv541090	chr11:76900813-77520411	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	esv2752651	chr11:77211136-77318279	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1038974	chr11:77284036-77431228	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
7	nsv1041384	chr11:77284558-77419809	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
8	nsv1048892	chr11:77290458-77431228	Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
9	nsv1053074	chr11:77290458-77435831	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
10	nsv468641	chr11:77301341-77420314	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
11	nsv555452	chr11:77301341-77420314	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
12	nsv1035494	chr11:77309696-77431228	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11237236	INTS4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:77301400-77346000	Weak transcription	Small Intestine	intestine
2	chr11:77301600-77312800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr11:77301600-77312800	Weak transcription	HMEC	breast
4	chr11:77301600-77313400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr11:77301600-77317200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr11:77301600-77317800	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr11:77301600-77318600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr11:77301600-77332800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr11:77301800-77312800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr11:77301800-77313000	Weak transcription	Primary hematopoietic stem cells	blood
11	chr11:77301800-77313800	Weak transcription	Left Ventricle	heart
12	chr11:77301800-77316200	Weak transcription	Fetal Muscle Trunk	muscle
13	chr11:77301800-77316600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr11:77301800-77317200	Weak transcription	Fetal Muscle Leg	muscle
15	chr11:77301800-77318200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr11:77301800-77322400	Weak transcription	Primary B cells from peripheral blood	blood
17	chr11:77301800-77326600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr11:77301800-77332200	Weak transcription	Esophagus	oesophagus
19	chr11:77301800-77345800	Weak transcription	Spleen	Spleen
20	chr11:77302000-77312800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr11:77302000-77312800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr11:77302000-77312800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr11:77302000-77312800	Weak transcription	K562	blood
24	chr11:77302000-77313000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr11:77302000-77313400	Weak transcription	Adipose Nuclei	Adipose
26	chr11:77302000-77313600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr11:77302000-77315200	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr11:77302000-77316000	Weak transcription	Fetal Stomach	stomach
29	chr11:77302000-77316400	Weak transcription	Fetal Lung	lung
30	chr11:77302000-77317400	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr11:77302000-77318400	Weak transcription	Fetal Kidney	kidney
32	chr11:77302000-77322400	Weak transcription	Colon Smooth Muscle	Colon
33	chr11:77302200-77313000	Weak transcription	Duodenum Smooth Muscle	Duodenum
34	chr11:77302200-77317200	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr11:77302200-77321400	Weak transcription	Fetal Brain Female	brain
36	chr11:77302200-77321800	Weak transcription	Brain Germinal Matrix	brain
37	chr11:77302600-77316600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr11:77303400-77322600	Weak transcription	Fetal Brain Male	brain
39	chr11:77305600-77312800	Weak transcription	Liver	Liver
40	chr11:77305600-77326000	Weak transcription	Primary B cells from cord blood	blood
41	chr11:77307400-77312800	Weak transcription	Ovary	ovary
42	chr11:77308000-77312800	Weak transcription	HepG2	liver
43	chr11:77308800-77312800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr11:77308800-77318600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr11:77309800-77312800	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr11:77309800-77317400	Weak transcription	Placenta	Placenta
47	chr11:77310200-77312800	Weak transcription	GM12878-XiMat	blood
48	chr11:77310200-77317000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr11:77310400-77317600	Weak transcription	Primary T cells from cord blood	blood
50	chr11:77310800-77313800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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