Variant report

Variant	rs6482190
Chromosome Location	chr10:22037809-22037810
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	chr10:22036433..22039412-chr10:22043062..22044607,2	MCF-7	breast:
2	chr10:22032480..22035941-chr10:22037308..22040299,3	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10508639	1.00[CHB][hapmap];1.00[YRI][hapmap];0.83[ASN][1000 genomes]
rs10740991	1.00[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10828252	1.00[CHB][hapmap];0.84[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap]
rs10828264	1.00[CHB][hapmap];0.87[GIH][hapmap];0.81[MKK][hapmap]
rs10828266	1.00[CHB][hapmap];0.89[MEX][hapmap];0.83[ASN][1000 genomes]
rs11012737	1.00[CHB][hapmap];0.84[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap]
rs11012794	0.87[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[LWK][hapmap];0.89[MEX][hapmap];0.82[YRI][hapmap];0.86[ASN][1000 genomes]
rs12356674	0.83[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap]
rs1243179	0.86[ASN][1000 genomes]
rs1243185	0.86[ASN][1000 genomes]
rs1243189	0.86[ASN][1000 genomes]
rs1243194	1.00[CHB][hapmap];0.90[GIH][hapmap];0.89[MEX][hapmap]
rs1243195	1.00[CHB][hapmap]
rs1269454	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs2026092	1.00[CHB][hapmap];0.87[GIH][hapmap];0.85[MEX][hapmap]
rs2050905	0.84[MKK][hapmap]
rs2066270	0.87[ASW][hapmap];1.00[CHB][hapmap];0.87[GIH][hapmap];0.86[ASN][1000 genomes]
rs2066271	0.87[ASW][hapmap];1.00[CHB][hapmap];0.87[GIH][hapmap];0.86[ASN][1000 genomes]
rs2666769	1.00[CHB][hapmap];0.86[ASN][1000 genomes]
rs2666771	1.00[CHB][hapmap]
rs2666772	0.87[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[MEX][hapmap]
rs2666779	1.00[CHB][hapmap];0.87[GIH][hapmap]
rs2666782	1.00[CHB][hapmap]
rs2807977	1.00[CHB][hapmap]
rs2807979	0.87[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[MKK][hapmap];0.82[YRI][hapmap];0.86[ASN][1000 genomes]
rs2807984	0.87[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.82[MKK][hapmap];0.86[ASN][1000 genomes]
rs2807985	0.81[GIH][hapmap]
rs3951780	0.87[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes]
rs4024198	1.00[CHB][hapmap]
rs4146689	0.86[ASN][1000 genomes]
rs4748776	0.86[ASN][1000 genomes]
rs7082663	0.87[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[MKK][hapmap];0.82[YRI][hapmap];0.83[ASN][1000 genomes]
rs7089656	0.86[ASN][1000 genomes]
rs792453	1.00[CHB][hapmap];0.82[GIH][hapmap]
rs792454	0.86[ASN][1000 genomes]
rs792455	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs792456	0.84[GIH][hapmap]
rs806774	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1052464	chr10:21856531-22220087	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	esv1802317	chr10:21866085-22288132	Strong transcription Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv894947	chr10:21869609-22117913	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv550203	chr10:21916468-22062729	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv540513	chr10:22031022-22065456	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6482190	MLLT10	Cis_1M	lymphoblastoid	RTeQTL
rs6482190	PXDN	trans	lymphoblastoid	seeQTL

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22016800-22038800	Weak transcription	Stomach Mucosa	stomach
2	chr10:22023000-22046200	Weak transcription	Right Atrium	heart
3	chr10:22023200-22039800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr10:22024600-22039000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:22024800-22039800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr10:22028200-22056600	Weak transcription	Hela-S3	cervix
7	chr10:22029200-22040200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr10:22029400-22053000	Weak transcription	Colonic Mucosa	Colon
9	chr10:22031600-22039800	Strong transcription	Fetal Stomach	stomach
10	chr10:22032800-22042600	Weak transcription	HepG2	liver
11	chr10:22033400-22039800	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr10:22033800-22039200	Weak transcription	Fetal Kidney	kidney
13	chr10:22033800-22040000	Weak transcription	K562	blood
14	chr10:22033800-22041200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr10:22033800-22043600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr10:22033800-22044600	Weak transcription	HSMMtube	muscle
17	chr10:22033800-22046600	Weak transcription	Brain Hippocampus Middle	brain
18	chr10:22033800-22047400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr10:22033800-22047400	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr10:22033800-22047600	Weak transcription	Colon Smooth Muscle	Colon
21	chr10:22034000-22038200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr10:22034000-22039400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr10:22034000-22039400	Weak transcription	Esophagus	oesophagus
24	chr10:22034000-22041000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr10:22034000-22043000	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr10:22034000-22043400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr10:22034000-22043400	Weak transcription	Adipose Nuclei	Adipose
28	chr10:22034000-22044600	Weak transcription	Osteobl	bone
29	chr10:22034000-22045600	Weak transcription	Duodenum Mucosa	Duodenum
30	chr10:22034000-22045600	Weak transcription	Ovary	ovary
31	chr10:22034000-22046400	Weak transcription	Fetal Brain Female	brain
32	chr10:22034000-22046800	Weak transcription	Brain Substantia Nigra	brain
33	chr10:22034000-22046800	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr10:22034000-22047600	Weak transcription	Small Intestine	intestine
35	chr10:22034000-22047800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr10:22034000-22049800	Weak transcription	Brain Cingulate Gyrus	brain
37	chr10:22034000-22052600	Weak transcription	Primary B cells from cord blood	blood
38	chr10:22034200-22047400	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr10:22034400-22038200	Weak transcription	HUES64 Cell Line	embryonic stem cell
40	chr10:22034400-22038200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr10:22034400-22038800	Weak transcription	NHEK	skin
42	chr10:22034400-22039400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr10:22034400-22040000	Weak transcription	Fetal Intestine Large	intestine
44	chr10:22034400-22040000	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr10:22034400-22041200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr10:22034400-22041200	Weak transcription	Stomach Smooth Muscle	stomach
47	chr10:22034400-22041600	Weak transcription	Spleen	Spleen
48	chr10:22034400-22041800	Weak transcription	HSMM	muscle
49	chr10:22034400-22042000	Weak transcription	Pancreas	Pancrea
50	chr10:22034400-22042200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

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