Variant report

Variant	rs1802669
Chromosome Location	chr10:21827796-21827797
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	chr10:21822263..21825196-chr10:21825343..21829411,7	MCF-7	breast:
2	chr10:21820691..21824935-chr10:21826133..21829132,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000078403	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10828247	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10828248	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10828249	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10828250	0.84[EUR][1000 genomes]
rs11012732	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11012737	0.82[EUR][1000 genomes]
rs12251016	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12253527	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12779865	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1416901	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4748768	0.82[ASN][1000 genomes]
rs7084454	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7098100	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7910002	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 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	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
9	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
10	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
11	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
12	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
13	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
14	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
15	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
16	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1802669	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	chr10:21822800-21837800	Weak transcription	Stomach Mucosa	stomach
2	chr10:21824600-21827800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr10:21824600-21828400	Weak transcription	Left Ventricle	heart
4	chr10:21824600-21828400	Weak transcription	Lung	lung
5	chr10:21824600-21828400	Weak transcription	Small Intestine	intestine
6	chr10:21824600-21828400	Weak transcription	Spleen	Spleen
7	chr10:21824600-21829800	Weak transcription	Colonic Mucosa	Colon
8	chr10:21824600-21842600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr10:21824600-21864600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr10:21824600-21930400	Weak transcription	Gastric	stomach
11	chr10:21824800-21827800	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr10:21824800-21827800	Weak transcription	Osteobl	bone
13	chr10:21824800-21828400	Weak transcription	Right Ventricle	heart
14	chr10:21824800-21828800	Weak transcription	Thymus	Thymus
15	chr10:21824800-21829200	Weak transcription	HSMMtube	muscle
16	chr10:21824800-21830000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr10:21824800-21830400	Weak transcription	Fetal Kidney	kidney
18	chr10:21824800-21830600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr10:21824800-21831600	Weak transcription	Aorta	Aorta
20	chr10:21824800-21839200	Weak transcription	Hela-S3	cervix
21	chr10:21824800-21841800	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr10:21824800-21852200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr10:21824800-21852200	Strong transcription	Fetal Intestine Small	intestine
24	chr10:21824800-21860200	Weak transcription	Psoas Muscle	Psoas
25	chr10:21825000-21827800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr10:21825000-21828000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr10:21825000-21828800	Weak transcription	Brain Cingulate Gyrus	brain
28	chr10:21825000-21829200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr10:21825000-21829200	Weak transcription	NHEK	skin
30	chr10:21825000-21838800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr10:21825000-21844200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr10:21825000-21850000	Strong transcription	HUES64 Cell Line	embryonic stem cell
33	chr10:21825200-21827800	Weak transcription	Adipose Nuclei	Adipose
34	chr10:21825200-21827800	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr10:21825200-21828400	Weak transcription	Ovary	ovary
36	chr10:21825200-21828600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr10:21825200-21828600	Weak transcription	Brain Germinal Matrix	brain
38	chr10:21825200-21829200	Weak transcription	Primary hematopoietic stem cells	blood
39	chr10:21825200-21829200	Weak transcription	Brain Substantia Nigra	brain
40	chr10:21825200-21829200	Weak transcription	Fetal Brain Female	brain
41	chr10:21825200-21835800	Strong transcription	Placenta	Placenta
42	chr10:21825200-21850600	Strong transcription	Fetal Stomach	stomach
43	chr10:21825200-21854800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr10:21825400-21827800	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr10:21825400-21836000	Strong transcription	HUES6 Cell Line	embryonic stem cell
46	chr10:21825400-21836200	Strong transcription	Fetal Muscle Trunk	muscle
47	chr10:21825400-21836800	Strong transcription	Fetal Muscle Leg	muscle
48	chr10:21825400-21837000	Strong transcription	Fetal Thymus	thymus
49	chr10:21825400-21839000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr10:21825400-21839200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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