Variant report

Variant	rs10828249
Chromosome Location	chr10:21824727-21824728
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:21784105..21788419-chr10:21820020..21825934,15	K562	blood:
2	chr10:21784774..21789957-chr10:21820858..21826220,9	MCF-7	breast:
3	chr10:21824097..21826874-chr10:22615041..22617499,2	K562	blood:
4	chr10:21462486..21464752-chr10:21822711..21824780,2	MCF-7	breast:
5	chr10:21824380..21826372-chr10:21842074..21844777,3	K562	blood:

Variant related genes	Relation type
ENSG00000204682	Chromatin interaction
ENSG00000078114	Chromatin interaction
ENSG00000222071	Chromatin interaction
ENSG00000168283	Chromatin interaction
ENSG00000231920	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10828247	1.00[ASW][hapmap];0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10828248	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10828250	0.83[EUR][1000 genomes]
rs10828252	0.81[MEX][hapmap]
rs11012730	0.86[GIH][hapmap]
rs11012732	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11012737	0.87[MEX][hapmap];0.83[TSI][hapmap];0.81[EUR][1000 genomes]
rs12251016	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12253527	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12256551	0.83[CEU][hapmap]
rs1243182	0.83[GIH][hapmap]
rs12779865	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1416901	0.83[CEU][hapmap];1.00[CHB][hapmap];0.82[LWK][hapmap];0.95[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1802669	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2026092	0.83[TSI][hapmap]
rs2183271	1.00[CHD][hapmap];0.86[TSI][hapmap]
rs4748768	0.82[ASN][1000 genomes]
rs5011832	0.82[GIH][hapmap]
rs6482189	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap]
rs7084454	0.93[YRI][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7098100	0.91[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.89[GIH][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7910002	0.82[ASN][1000 genomes]
rs946711	0.82[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv825284	chr10:21739527-21847437	Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
2	nsv825285	chr10:21742026-21874334	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
3	nsv825286	chr10:21757784-21838890	Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
4	nsv825288	chr10:21759085-21831354	Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
5	nsv825289	chr10:21762506-21845875	Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
6	nsv825290	chr10:21777857-21830878	Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	33 gene(s)	inside rSNPs	diseases
7	nsv894936	chr10:21781589-21827796	Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	33 gene(s)	inside rSNPs	diseases
8	nsv550200	chr10:21782842-21824727	Active TSS Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	33 gene(s)	inside rSNPs	diseases
9	nsv894937	chr10:21782842-21827796	Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	33 gene(s)	inside rSNPs	diseases
10	nsv894938	chr10:21784899-21827796	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	33 gene(s)	inside rSNPs	diseases
11	nsv894939	chr10:21789406-21830104	Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
12	nsv825291	chr10:21792100-21830946	Active TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
13	nsv550201	chr10:21796081-21824727	Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
14	nsv894941	chr10:21796081-21827796	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
15	nsv894944	chr10:21798241-21827796	Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
16	nsv894945	chr10:21798241-21830104	Active TSS Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
17	nsv894946	chr10:21798241-21831215	Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
18	nsv1052477	chr10:21810270-21889726	Active TSS Genic enhancers Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
19	esv3422795	chr10:21821971-21825319	Active TSS Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
20	esv3327865	chr10:21822171-21824869	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10828249	MLLT10	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:21821800-21824800	Active TSS	Aorta	Aorta
2	chr10:21821800-21824800	Active TSS	Right Ventricle	heart
3	chr10:21821800-21824800	Active TSS	Thymus	Thymus
4	chr10:21822000-21824800	Active TSS	Breast Myoepithelial Primary Cells	Breast
5	chr10:21822000-21825000	Active TSS	Brain Inferior Temporal Lobe	brain
6	chr10:21822000-21825200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr10:21822200-21824800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr10:21822200-21824800	Active TSS	Brain Anterior Caudate	brain
9	chr10:21822200-21824800	Active TSS	Fetal Intestine Large	intestine
10	chr10:21822200-21824800	Active TSS	Ovary	ovary
11	chr10:21822200-21825000	Active TSS	ES-I3 Cell Line	embryonic stem cell
12	chr10:21822200-21825000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr10:21822200-21825000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr10:21822200-21825400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr10:21822400-21824800	Active TSS	HUES64 Cell Line	embryonic stem cell
16	chr10:21822400-21824800	Active TSS	Fetal Kidney	kidney
17	chr10:21822400-21824800	Active TSS	Fetal Stomach	stomach
18	chr10:21822400-21825000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr10:21822400-21825000	Active TSS	Duodenum Smooth Muscle	Duodenum
20	chr10:21822600-21824800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr10:21822600-21824800	Active TSS	HSMM	muscle
22	chr10:21822600-21825000	Active TSS	iPS-18 Cell Line	embryonic stem cell
23	chr10:21822600-21825000	Active TSS	Muscle Satellite Cultured Cells	--
24	chr10:21822600-21825000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr10:21822600-21825000	Active TSS	NHDF-Ad	bronchial
26	chr10:21822600-21825200	Active TSS	HUES6 Cell Line	embryonic stem cell
27	chr10:21822600-21825200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr10:21822600-21826000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr10:21822800-21824800	Active TSS	Rectal Mucosa Donor 31	rectum
30	chr10:21822800-21837800	Weak transcription	Stomach Mucosa	stomach
31	chr10:21823000-21825200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr10:21824000-21825000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
33	chr10:21824200-21824800	Flanking Active TSS	Primary B cells from peripheral blood	blood
34	chr10:21824200-21824800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
35	chr10:21824200-21824800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
36	chr10:21824200-21824800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr10:21824200-21824800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr10:21824200-21824800	Flanking Active TSS	Adipose Nuclei	Adipose
39	chr10:21824200-21824800	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
40	chr10:21824200-21824800	Flanking Active TSS	Fetal Thymus	thymus
41	chr10:21824200-21824800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
42	chr10:21824200-21824800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
43	chr10:21824200-21824800	Transcr. at gene 5' and 3'	Dnd41	blood
44	chr10:21824200-21824800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
45	chr10:21824200-21825000	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr10:21824200-21825000	Flanking Active TSS	HMEC	breast
47	chr10:21824200-21825200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr10:21824400-21824800	Enhancers	Primary B cells from cord blood	blood
49	chr10:21824400-21824800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
50	chr10:21824400-21824800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood

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