Variant report

Variant	rs10153506
Chromosome Location	chr19:35817896-35817897
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr19:35817105-35819140	A549	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr19:35812803..35814917-chr19:35816658..35818799,2	K562	blood:
2	chr19:35814978..35818843-chr19:35819737..35823316,4	K562	blood:
3	chr19:35760769..35762732-chr19:35816516..35818577,2	MCF-7	breast:
4	chr19:35757401..35760609-chr19:35817502..35820242,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000269553	TF binding region
CD22	TF binding region
ENSG00000269553	Chromatin interaction
ENSG00000012124	Chromatin interaction
ENSG00000105698	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs11669734	0.84[CEU][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7251526	0.84[CHB][hapmap]
rs756796	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs928938	0.94[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432045	chr19:35556260-36520760	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv1060100	chr19:35658505-36170042	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv543993	chr19:35658505-36170042	Enhancers Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh 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	107 gene(s)	inside rSNPs	diseases
4	nsv510765	chr19:35708226-35890668	Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
5	esv2758497	chr19:35711078-35887113	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
6	esv2758758	chr19:35711078-35887113	Bivalent Enhancer Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
7	nsv833810	chr19:35782588-35971959	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
8	esv1828194	chr19:35812566-35865695	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10153506	MAG	cis	Thyroid	GTEx
rs10153506	MAG	cis	lung	GTEx
rs10153506	CD22	cis	Thyroid	GTEx
rs10153506	U62631.5	cis	Thyroid	GTEx

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:35810400-35835200	Weak transcription	Fetal Lung	lung
2	chr19:35811600-35832200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr19:35812000-35819600	Weak transcription	Brain Cingulate Gyrus	brain
4	chr19:35812000-35820000	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr19:35812200-35819400	Weak transcription	Primary hematopoietic stem cells	blood
6	chr19:35813400-35819800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr19:35814600-35819600	Enhancers	Primary B cells from cord blood	blood
8	chr19:35815400-35818600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr19:35815400-35819600	Enhancers	Primary B cells from peripheral blood	blood
10	chr19:35815400-35819800	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr19:35815600-35819600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr19:35815800-35818400	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr19:35816200-35818400	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr19:35816800-35819600	Weak transcription	GM12878-XiMat	blood
15	chr19:35817000-35818600	Enhancers	HepG2	liver
16	chr19:35817400-35818000	Enhancers	Brain Hippocampus Middle	brain
17	chr19:35817600-35818000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr19:35817600-35818000	Enhancers	Ovary	ovary
19	chr19:35817600-35844000	Weak transcription	Brain Angular Gyrus	brain
20	chr19:35817800-35818000	Enhancers	Brain Substantia Nigra	brain
21	chr19:35817800-35818800	Enhancers	Breast Myoepithelial Primary Cells	Breast

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