Variant report

Variant	rs10961444
Chromosome Location	chr9:14237632-14237633
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:14228943..14231168-chr9:14236666..14238906,2	MCF-7	breast:
2	chr9:14236857..14240326-chr9:14312034..14315469,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000147862	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10961441	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10961443	0.84[CEU][hapmap];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11789657	0.87[CEU][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1322985	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1322986	0.86[AMR][1000 genomes]
rs1322987	0.85[AMR][1000 genomes]
rs7040053	0.96[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023303	chr9:14025605-14286269	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv540069	chr9:14025605-14286269	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1029491	chr9:14033607-14942373	Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv915804	chr9:14182608-14903050	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
5	nsv916811	chr9:14210978-14542068	Enhancers Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv892598	chr9:14234315-14274950	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:14221200-14245600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:14222400-14237800	Weak transcription	NH-A	brain
3	chr9:14222400-14238000	Weak transcription	Placenta	Placenta
4	chr9:14222400-14240600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr9:14222600-14238000	Weak transcription	Osteobl	bone
6	chr9:14224000-14238000	Weak transcription	Pancreas	Pancrea
7	chr9:14224400-14246800	Weak transcription	Fetal Muscle Trunk	muscle
8	chr9:14224800-14237800	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr9:14231000-14238200	Weak transcription	Ovary	ovary
10	chr9:14233000-14240200	Weak transcription	Brain Germinal Matrix	brain
11	chr9:14234800-14240200	Enhancers	Fetal Heart	heart
12	chr9:14235000-14239800	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr9:14235200-14238400	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr9:14235200-14238400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr9:14235200-14238800	Enhancers	Fetal Intestine Small	intestine
16	chr9:14235200-14241800	Enhancers	Adipose Nuclei	Adipose
17	chr9:14235400-14239400	Enhancers	Brain Anterior Caudate	brain
18	chr9:14235600-14238000	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr9:14235600-14238600	Enhancers	Brain Cingulate Gyrus	brain
20	chr9:14235800-14238000	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr9:14235800-14238000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr9:14235800-14238400	Enhancers	Brain Hippocampus Middle	brain
23	chr9:14235800-14238600	Enhancers	Liver	Liver
24	chr9:14235800-14238800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr9:14236000-14237800	Enhancers	Brain Substantia Nigra	brain
26	chr9:14236000-14238000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr9:14236400-14237800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
28	chr9:14236400-14238000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr9:14236400-14238200	Enhancers	HMEC	breast
30	chr9:14236400-14238600	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr9:14236400-14238600	Flanking Active TSS	HUVEC	blood vessel
32	chr9:14236400-14241400	Enhancers	HUES64 Cell Line	embryonic stem cell
33	chr9:14236400-14245400	Enhancers	Cortex derived primary cultured neurospheres	brain
34	chr9:14236600-14238000	Weak transcription	Fetal Intestine Large	intestine
35	chr9:14236600-14238000	Weak transcription	HSMMtube	muscle
36	chr9:14236600-14238200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr9:14236600-14238400	Enhancers	Fetal Brain Male	brain
38	chr9:14236600-14240600	Weak transcription	Small Intestine	intestine
39	chr9:14236800-14238000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr9:14236800-14238200	Enhancers	Fetal Stomach	stomach
41	chr9:14236800-14238200	Flanking Active TSS	A549	lung
42	chr9:14236800-14239000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
43	chr9:14236800-14239000	Enhancers	NHLF	lung
44	chr9:14237000-14238000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr9:14237000-14238000	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr9:14237000-14238000	Weak transcription	Rectal Smooth Muscle	rectum
47	chr9:14237000-14238000	Enhancers	Hela-S3	cervix
48	chr9:14237000-14238400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr9:14237000-14238400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr9:14237000-14238400	Enhancers	Right Ventricle	heart

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