Variant report

Variant	rs16883106
Chromosome Location	chr6:62994328-62994329
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:62518763..62519292-chr6:62993656..62994388,2	MCF-7	breast:

Extended variants
information (count: 8 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs523967	0.88[ASN][1000 genomes]
rs855408	0.83[ASN][1000 genomes]
rs9294843	0.86[ASN][1000 genomes]

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	nsv1017249	chr6:62906813-63317382	Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1020677	chr6:62911584-63309663	Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv532025	chr6:62944349-63571677	Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv916760	chr6:62944661-63290986	Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1034520	chr6:62967960-63057406	Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16883106	MCART3P	cis	cerebellum	SCAN

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:62976400-62994400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:62991800-62996800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr6:62992600-62994800	Active TSS	Fetal Brain Female	brain
4	chr6:62992600-62997000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
5	chr6:62992800-62994800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr6:62992800-62997000	Active TSS	Brain Angular Gyrus	brain
7	chr6:62992800-62997000	Active TSS	Brain Inferior Temporal Lobe	brain
8	chr6:62993000-62997000	Active TSS	Fetal Brain Male	brain
9	chr6:62993200-62996600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr6:62993400-62996800	Active TSS	Fetal Intestine Small	intestine
11	chr6:62993600-62995200	Flanking Active TSS	Primary B cells from cord blood	blood
12	chr6:62993600-62996400	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:62993800-62995000	Weak transcription	Brain Anterior Caudate	brain
14	chr6:62993800-62995000	Weak transcription	Brain Cingulate Gyrus	brain
15	chr6:62993800-62995000	Weak transcription	Brain Germinal Matrix	brain
16	chr6:62993800-62995000	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr6:62993800-62996600	Active TSS	iPS-20b Cell Line	embryonic stem cell
18	chr6:62993800-62996600	Active TSS	Fetal Intestine Large	intestine
19	chr6:62994000-62994400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
20	chr6:62994000-62996600	Active TSS	H1 Cell Line	embryonic stem cell
21	chr6:62994000-62996600	Active TSS	iPS-18 Cell Line	embryonic stem cell
22	chr6:62994200-62994400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr6:62994200-62994600	Active TSS	HUES64 Cell Line	embryonic stem cell
24	chr6:62994200-62994800	Active TSS	HUES48 Cell Line	embryonic stem cell
25	chr6:62994200-62994800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr6:62994200-62995000	Weak transcription	Primary B cells from peripheral blood	blood
27	chr6:62994200-62995000	Enhancers	Primary hematopoietic stem cells	blood
28	chr6:62994200-62995000	Weak transcription	Brain Hippocampus Middle	brain

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