Variant report

Variant	rs9784679
Chromosome Location	chr5:107220280-107220281
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	chr5:107218138..107220384-chr5:107223112..107225294,2	MCF-7	breast:

Extended variants
information (count: 6 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10463584	0.82[CHB][hapmap]
rs11748134	0.82[CHB][hapmap];0.86[CHD][hapmap];0.86[GIH][hapmap];0.93[MEX][hapmap];0.89[AMR][1000 genomes]
rs12514884	0.88[CHB][hapmap]
rs12518124	0.88[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830440	chr5:107074116-107278905	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv882682	chr5:107213361-107458336	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9784679	AFP	trans	parietal	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107195400-107223200	Weak transcription	Left Ventricle	heart
2	chr5:107196800-107223200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
3	chr5:107197800-107228800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr5:107198000-107223000	Weak transcription	Adipose Nuclei	Adipose
5	chr5:107205800-107230000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr5:107206200-107221800	Weak transcription	HUVEC	blood vessel
7	chr5:107209400-107226000	Weak transcription	Psoas Muscle	Psoas
8	chr5:107211000-107220400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr5:107211600-107221400	Weak transcription	Thymus	Thymus
10	chr5:107212000-107228800	Weak transcription	Aorta	Aorta
11	chr5:107212400-107223200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr5:107213000-107223200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr5:107213200-107225000	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr5:107213600-107223400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr5:107216000-107223000	Weak transcription	Ovary	ovary
16	chr5:107216200-107223000	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr5:107216400-107221000	Weak transcription	Primary T cells from cord blood	blood
18	chr5:107216400-107240600	Weak transcription	Primary B cells from cord blood	blood
19	chr5:107216600-107226200	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr5:107219200-107220400	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr5:107219400-107220600	Enhancers	Duodenum Mucosa	Duodenum
22	chr5:107219400-107220600	Enhancers	Fetal Intestine Large	intestine
23	chr5:107219600-107220600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr5:107219800-107221800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr5:107220000-107220600	Enhancers	Fetal Intestine Small	intestine
26	chr5:107220000-107221000	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr5:107220000-107223000	Weak transcription	HUES48 Cell Line	embryonic stem cell

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