Variant report

Variant	rs10896028
Chromosome Location	chr11:65432187-65432188
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:65307679..65310014-chr11:65429997..65432824,2	MCF-7	breast:
2	chr11:65428955..65432251-chr11:65654758..65658672,5	K562	blood:
3	chr11:65339484..65343401-chr11:65428921..65432383,5	MCF-7	breast:
4	chr11:65423887..65432217-chr11:65622069..65628988,12	K562	blood:
5	chr11:65429766..65432533-chr11:65462094..65464981,2	MCF-7	breast:
6	chr11:65429132..65432605-chr11:65622916..65626202,6	MCF-7	breast:
7	chr11:65336349..65338989-chr11:65428353..65432348,4	MCF-7	breast:
8	chr11:65381571..65386287-chr11:65427993..65433260,8	MCF-7	breast:
9	chr11:65428923..65432488-chr11:65624731..65627563,6	MCF-7	breast:
10	chr11:65430466..65432280-chr11:65478658..65481830,3	K562	blood:
11	chr11:65430893..65432531-chr11:65618937..65620451,2	K562	blood:
12	chr11:65428216..65430448-chr11:65431994..65433831,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SIPA1-2	chr11:65430445-65432196	NONHSAT022201

No data

Variant related genes	Relation type
ENSG00000172500	Chromatin interaction
ENSG00000176973	Chromatin interaction
ENSG00000173465	Chromatin interaction
ENSG00000239356	Chromatin interaction
ENSG00000175602	Chromatin interaction
ENSG00000172732	Chromatin interaction
ENSG00000168056	Chromatin interaction
ENSG00000260233	Chromatin interaction
ENSG00000172757	Chromatin interaction
ENSG00000197136	Chromatin interaction
ENSG00000172977	Chromatin interaction
ENSG00000173039	Chromatin interaction
ENSG00000173327	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1073602	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1074155	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1074156	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10791822	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10896025	0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10896026	0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10896032	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10896033	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10896034	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10896035	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10896037	0.83[ASN][1000 genomes]
rs10896038	0.83[ASN][1000 genomes]
rs11227251	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11227254	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11227279	0.83[ASN][1000 genomes]
rs11227281	0.83[ASN][1000 genomes]
rs11532071	0.83[ASN][1000 genomes]
rs11537193	0.83[ASN][1000 genomes]
rs11568300	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11600918	0.83[ASN][1000 genomes]
rs11601509	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11604568	0.83[ASN][1000 genomes]
rs11606947	0.83[ASN][1000 genomes]
rs12225620	0.83[ASN][1000 genomes]
rs12289836	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12576766	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12802391	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1466462	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2236682	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2306362	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28464085	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4014192	0.83[ASN][1000 genomes]
rs4014195	0.83[ASN][1000 genomes]
rs4645927	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4645933	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4930312	0.83[ASN][1000 genomes]
rs4930313	0.83[ASN][1000 genomes]
rs56686587	0.83[ASN][1000 genomes]
rs60626743	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61893835	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61895665	0.94[ASN][1000 genomes]
rs6591185	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6591187	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6591188	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7110576	0.83[ASN][1000 genomes]
rs7115734	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7120713	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7123489	0.86[ASN][1000 genomes]
rs746429	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7924510	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7930301	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7947604	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7952133	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9666878	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv897716	chr11:65083491-65481166	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	999 gene(s)	inside rSNPs	diseases
2	nsv897718	chr11:65140209-65577516	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1003 gene(s)	inside rSNPs	diseases
3	nsv897720	chr11:65213434-65445950	Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	665 gene(s)	inside rSNPs	diseases
4	nsv897722	chr11:65278461-65436888	Genic enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	102 gene(s)	inside rSNPs	diseases
5	nsv897723	chr11:65294830-65481166	Transcr. at gene 5' and 3' Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
6	nsv897734	chr11:65335705-65436888	Flanking Active TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
7	nsv897735	chr11:65335705-65481166	Flanking Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
8	nsv897736	chr11:65335705-65676516	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	227 gene(s)	inside rSNPs	diseases
9	nsv897747	chr11:65353906-65481166	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
10	nsv897748	chr11:65392695-65466911	Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
11	nsv897754	chr11:65405300-65436888	Transcr. at gene 5' and 3' Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
12	nsv897755	chr11:65405300-65481166	Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
13	nsv430401	chr11:65419324-65788024	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	224 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:65431000-65432200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr11:65431200-65432200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
3	chr11:65431400-65434200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr11:65431400-65435400	Weak transcription	Spleen	Spleen
5	chr11:65431600-65432200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr11:65431600-65432200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
7	chr11:65431600-65432200	Enhancers	Adipose Nuclei	Adipose
8	chr11:65431600-65432200	Enhancers	Liver	Liver
9	chr11:65431600-65432200	Enhancers	Brain Substantia Nigra	brain
10	chr11:65431600-65432200	Enhancers	Colonic Mucosa	Colon
11	chr11:65431600-65432200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr11:65431600-65432200	Enhancers	Fetal Intestine Large	intestine
13	chr11:65431600-65432200	Enhancers	Fetal Muscle Leg	muscle
14	chr11:65431600-65432200	Enhancers	Fetal Thymus	thymus
15	chr11:65431600-65432200	Active TSS	Hela-S3	cervix
16	chr11:65431600-65432400	Enhancers	Primary B cells from peripheral blood	blood
17	chr11:65431600-65432400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
18	chr11:65431600-65432400	Enhancers	Fetal Muscle Trunk	muscle
19	chr11:65431600-65432600	Enhancers	Primary T cells fromperipheralblood	blood
20	chr11:65431600-65432600	Enhancers	Primary hematopoietic stem cells	blood
21	chr11:65431600-65432600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr11:65431600-65433400	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr11:65431600-65434200	Weak transcription	Brain Hippocampus Middle	brain
24	chr11:65431600-65434400	Weak transcription	Psoas Muscle	Psoas
25	chr11:65431800-65432200	Enhancers	H1 Cell Line	embryonic stem cell
26	chr11:65431800-65432200	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr11:65431800-65432200	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr11:65431800-65432200	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr11:65431800-65432200	Enhancers	Primary T cells from cord blood	blood
30	chr11:65431800-65432200	Enhancers	Primary hematopoietic stem cells short term culture	blood
31	chr11:65431800-65432200	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr11:65431800-65432200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr11:65431800-65432200	Enhancers	Cortex derived primary cultured neurospheres	brain
34	chr11:65431800-65432200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr11:65431800-65432200	Enhancers	Brain Anterior Caudate	brain
36	chr11:65431800-65432200	Enhancers	Fetal Stomach	stomach
37	chr11:65431800-65432200	Enhancers	Rectal Mucosa Donor 29	rectum
38	chr11:65431800-65432200	Enhancers	Rectal Mucosa Donor 31	rectum
39	chr11:65431800-65432200	Enhancers	Monocytes-CD14+_RO01746	blood
40	chr11:65431800-65432400	Enhancers	Primary B cells from cord blood	blood
41	chr11:65431800-65432400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr11:65431800-65434200	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr11:65431800-65435200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr11:65432000-65432200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr11:65432000-65432200	Enhancers	Primary T helper cells fromperipheralblood	blood
46	chr11:65432000-65432200	Enhancers	Dnd41	blood
47	chr11:65432000-65432400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr11:65432000-65433800	Weak transcription	Left Ventricle	heart
49	chr11:65432000-65434400	Weak transcription	Rectal Smooth Muscle	rectum
50	chr11:65432000-65435000	Weak transcription	Fetal Intestine Small	intestine

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