Variant report

Variant	rs7041298
Chromosome Location	chr9:8649429-8649430
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs35703786	0.82[EUR][1000 genomes]
rs7032242	0.86[YRI][hapmap]
rs7870388	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.81[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	nsv1031472	chr9:8250901-8712547	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv1022796	chr9:8360729-9110046	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv892228	chr9:8482778-8703733	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv831504	chr9:8496277-8665773	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv892231	chr9:8569186-8659757	Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv892232	chr9:8645448-8698875	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv892233	chr9:8645448-8702964	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv892234	chr9:8645448-8703733	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7041298	RLN1	cis	parietal	SCAN

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8629800-8651600	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr9:8630200-8652400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:8631000-8649800	Weak transcription	Ovary	ovary
4	chr9:8644000-8651800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr9:8644400-8660400	Weak transcription	Aorta	Aorta
6	chr9:8644600-8651200	Weak transcription	Fetal Muscle Leg	muscle
7	chr9:8645000-8651200	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr9:8645200-8651200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr9:8647800-8649600	Enhancers	Brain Anterior Caudate	brain
10	chr9:8647800-8650000	Enhancers	Primary hematopoietic stem cells	blood
11	chr9:8647800-8650200	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr9:8647800-8650200	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr9:8647800-8651200	Enhancers	Brain Hippocampus Middle	brain
14	chr9:8647800-8651200	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr9:8648000-8649600	Enhancers	NH-A	brain
16	chr9:8648000-8651400	Enhancers	Fetal Brain Male	brain
17	chr9:8648200-8649600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr9:8648200-8652400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr9:8648400-8649600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
20	chr9:8648400-8651600	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr9:8648400-8651800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr9:8648600-8649600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr9:8648800-8650000	Weak transcription	Fetal Brain Female	brain
24	chr9:8649000-8650000	Weak transcription	Brain Substantia Nigra	brain
25	chr9:8649000-8651200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr9:8649000-8652000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr9:8649200-8649600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr9:8649200-8649600	Enhancers	Dnd41	blood
29	chr9:8649200-8650000	Weak transcription	Brain Cingulate Gyrus	brain
30	chr9:8649400-8650600	Weak transcription	Brain Angular Gyrus	brain
31	chr9:8649400-8650800	Weak transcription	Fetal Heart	heart
32	chr9:8649400-8659000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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