Variant report

Variant	rs10007278
Chromosome Location	chr4:106549096-106549097
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	POLR2A	chr4:106548713-106549122	H1-neurons	neurons:	n/a	n/a
2	POLR2A	chr4:106548782-106549129	H1-neurons	neurons:	n/a	n/a
3	REST	chr4:106548845-106549262	H1-neurons	neurons:	n/a	n/a

Variant related genes	Relation type
ARHGEF38	TF binding region

Extended variants
information (count: 4 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11946652	0.92[ASN][1000 genomes]
rs56849622	0.82[ASN][1000 genomes]
rs6533214	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106516000-106553000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:106525400-106558600	Weak transcription	Fetal Intestine Large	intestine
3	chr4:106527200-106559000	Weak transcription	Fetal Intestine Small	intestine
4	chr4:106540600-106553800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr4:106542600-106551800	Weak transcription	HMEC	breast
6	chr4:106545200-106577800	Weak transcription	Pancreas	Pancrea
7	chr4:106545800-106552000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr4:106545800-106558600	Weak transcription	Left Ventricle	heart
9	chr4:106546000-106552400	Weak transcription	Brain Anterior Caudate	brain
10	chr4:106546000-106553800	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr4:106546000-106555800	Weak transcription	Fetal Lung	lung
12	chr4:106546000-106558200	Weak transcription	Brain Substantia Nigra	brain
13	chr4:106546200-106549400	Weak transcription	Stomach Mucosa	stomach
14	chr4:106546200-106551600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr4:106546200-106552000	Weak transcription	Brain Hippocampus Middle	brain
16	chr4:106546200-106554000	Weak transcription	Small Intestine	intestine
17	chr4:106546800-106550600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr4:106546800-106551800	Weak transcription	Fetal Heart	heart
19	chr4:106547000-106553800	Weak transcription	Duodenum Mucosa	Duodenum
20	chr4:106548400-106549600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr4:106548600-106549600	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr4:106548800-106549200	Enhancers	Brain Germinal Matrix	brain
23	chr4:106548800-106549200	Weak transcription	Fetal Brain Male	brain
24	chr4:106548800-106549400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr4:106548800-106549600	Enhancers	Gastric	stomach

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