Variant report

Variant	rs12770228
Chromosome Location	chr10:21783634-21783635
allele	A/G
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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr10:21776929..21781312-chr10:21781870..21784606,5	K562	blood:
2	chr10:21567039..21568307-chr10:21783578..21784351,3	MCF-7	breast:
3	chr10:21781958..21784712-chr10:21823428..21825922,3	MCF-7	breast:
4	chr10:21783475..21788073-chr10:21802793..21808915,11	MCF-7	breast:
5	chr10:21462007..21464472-chr10:21781862..21786298,5	MCF-7	breast:
6	chr10:21782892..21787980-chr10:21813728..21817191,12	MCF-7	breast:
7	chr10:21783009..21787738-chr10:21813105..21820576,17	MCF-7	breast:
8	chr10:21777811..21781312-chr10:21782033..21784606,3	K562	blood:
9	chr10:21566105..21568881-chr10:21783134..21785349,2	MCF-7	breast:
10	chr10:21782529..21784336-chr10:21839315..21841955,2	MCF-7	breast:
11	chr10:21783306..21788486-chr10:21805319..21811721,9	K562	blood:

No data

Variant related genes	Relation type
ENSG00000231920	Chromatin interaction
ENSG00000078114	Chromatin interaction
ENSG00000078403	Chromatin interaction
ENSG00000180592	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10828252	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[MKK][hapmap];0.83[TSI][hapmap]
rs11012722	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012726	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11012737	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[MKK][hapmap];0.86[TSI][hapmap];0.81[AMR][1000 genomes]
rs12356674	1.00[ASW][hapmap];1.00[MKK][hapmap]
rs12357321	0.86[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1243194	1.00[CHB][hapmap]
rs1243195	1.00[CHB][hapmap]
rs1269454	1.00[CHB][hapmap]
rs12766229	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16921773	1.00[CHB][hapmap]
rs16921779	1.00[CHB][hapmap]
rs2026092	1.00[CHB][hapmap];0.81[TSI][hapmap]
rs34853448	0.80[AMR][1000 genomes]
rs35336290	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs5011832	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs66934412	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7084454	1.00[CHB][hapmap]
rs874149	0.81[EUR][1000 genomes]
rs946711	1.00[CHB][hapmap];0.94[GIH][hapmap];0.86[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9732777	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 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	nsv527055	chr10:21764019-21822856	Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
7	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
8	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
9	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
10	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
11	nsv517469	chr10:21783634-21822856	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh 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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12770228	MLLT10	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:21782600-21786400	Active TSS	ES-I3 Cell Line	embryonic stem cell
2	chr10:21782800-21784000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr10:21782800-21784400	Flanking Active TSS	Primary hematopoietic stem cells	blood
4	chr10:21782800-21784600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr10:21783000-21783800	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
6	chr10:21783000-21783800	Active TSS	Stomach Smooth Muscle	stomach
7	chr10:21783000-21784200	Active TSS	NHLF	lung
8	chr10:21783000-21784600	Flanking Bivalent TSS/Enh	Primary neutrophils fromperipheralblood	blood
9	chr10:21783000-21784600	Flanking Bivalent TSS/Enh	Primary B cells from cord blood	blood
10	chr10:21783000-21784600	Flanking Bivalent TSS/Enh	Primary T killer naive cells fromperipheralblood	blood
11	chr10:21783000-21784600	Flanking Active TSS	Adipose Nuclei	Adipose
12	chr10:21783000-21784600	Flanking Bivalent TSS/Enh	Fetal Thymus	thymus
13	chr10:21783000-21784600	Active TSS	Right Atrium	heart
14	chr10:21783000-21784800	Flanking Bivalent TSS/Enh	Primary B cells from peripheral blood	blood
15	chr10:21783000-21784800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
16	chr10:21783000-21784800	Flanking Active TSS	Liver	Liver
17	chr10:21783000-21784800	Flanking Bivalent TSS/Enh	Dnd41	blood
18	chr10:21783000-21784800	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
19	chr10:21783000-21786600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
20	chr10:21783000-21786600	Active TSS	H9 Cell Line	embryonic stem cell
21	chr10:21783000-21786600	Active TSS	iPS-15b Cell Line	embryonic stem cell
22	chr10:21783000-21786600	Active TSS	Brain Cingulate Gyrus	brain
23	chr10:21783000-21786600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
24	chr10:21783000-21786600	Active TSS	Brain Substantia Nigra	brain
25	chr10:21783000-21786600	Active TSS	Colon Smooth Muscle	Colon
26	chr10:21783000-21786600	Active TSS	Ovary	ovary
27	chr10:21783000-21786800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr10:21783000-21786800	Active TSS	Brain Angular Gyrus	brain
29	chr10:21783200-21783800	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
30	chr10:21783200-21783800	Active TSS	Osteobl	bone
31	chr10:21783200-21784000	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr10:21783200-21784000	Bivalent/Poised TSS	Primary T cells from cord blood	blood
33	chr10:21783200-21784000	Flanking Bivalent TSS/Enh	Primary T helper memory cells from peripheral blood 1	blood
34	chr10:21783200-21784000	Flanking Bivalent TSS/Enh	Primary T helper 17 cells PMA-I stimulated	--
35	chr10:21783200-21784000	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood
36	chr10:21783200-21784000	Flanking Bivalent TSS/Enh	Colonic Mucosa	Colon
37	chr10:21783200-21784000	Flanking Active TSS	Spleen	Spleen
38	chr10:21783200-21784400	Flanking Bivalent TSS/Enh	Primary T helper cells fromperipheralblood	blood
39	chr10:21783200-21784600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
40	chr10:21783200-21784600	Flanking Bivalent TSS/Enh	Primary T helper naive cells fromperipheralblood	blood
41	chr10:21783200-21784600	Flanking Bivalent TSS/Enh	Primary T helper cells PMA-I stimulated	--
42	chr10:21783200-21784600	Flanking Bivalent TSS/Enh	Duodenum Mucosa	Duodenum
43	chr10:21783200-21784600	Flanking Bivalent TSS/Enh	Thymus	Thymus
44	chr10:21783200-21784800	Flanking Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr10:21783200-21784800	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
46	chr10:21783200-21784800	Active TSS	Fetal Heart	heart
47	chr10:21783200-21784800	Flanking Active TSS	HUVEC	blood vessel
48	chr10:21783200-21785800	Active TSS	Pancreas	Pancrea
49	chr10:21783200-21786200	Active TSS	Psoas Muscle	Psoas
50	chr10:21783200-21786600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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