Variant report

Variant	rs3740097
Chromosome Location	chr10:45471278-45471279
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:45426678..45428465-chr10:45470543..45473248,2	MCF-7	breast:
2	chr10:45358904..45360461-chr10:45469985..45472068,2	MCF-7	breast:
3	chr10:45466696..45473467-chr10:45492241..45499604,15	K562	blood:
4	chr10:45448181..45450867-chr10:45471052..45472632,2	K562	blood:
5	chr10:45469560..45475620-chr10:45475961..45481693,7	MCF-7	breast:
6	chr10:45359058..45361978-chr10:45470827..45473686,2	K562	blood:
7	chr10:45470718..45473140-chr10:45500575..45504463,3	K562	blood:
8	chr10:45427854..45429057-chr10:45469852..45471361,17	MCF-7	breast:
9	chr10:45443298..45445238-chr10:45469155..45471485,2	MCF-7	breast:
10	chr10:45467811..45472693-chr10:45495081..45499604,7	K562	blood:

No data

Variant related genes	Relation type
ENSG00000107551	Chromatin interaction
ENSG00000165511	Chromatin interaction
ENSG00000187783	Chromatin interaction
ENSG00000165512	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11818604	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11818623	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3740094	0.84[ASN][1000 genomes]
rs3740098	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3758401	0.92[EUR][1000 genomes]
rs869156	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs882845	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs883733	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs883734	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs883735	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs914700	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs914701	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv831846	chr10:45322236-45556370	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv526734	chr10:45458485-45492054	Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3740097	RASSF4	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:45468000-45471800	Enhancers	Fetal Heart	heart
2	chr10:45468600-45471400	Enhancers	Gastric	stomach
3	chr10:45468600-45471600	Enhancers	Dnd41	blood
4	chr10:45469000-45472000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr10:45469600-45473200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr10:45469800-45471400	Active TSS	ES-I3 Cell Line	embryonic stem cell
7	chr10:45470000-45471800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr10:45470000-45472200	Active TSS	Aorta	Aorta
9	chr10:45470200-45471600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr10:45470200-45471800	Active TSS	Ovary	ovary
11	chr10:45470200-45472000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr10:45470200-45473000	Active TSS	Pancreatic Islets	Pancreatic Islet
13	chr10:45470400-45471400	Active TSS	Psoas Muscle	Psoas
14	chr10:45470400-45471400	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr10:45470400-45471400	Weak transcription	HSMMtube	muscle
16	chr10:45470400-45471600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr10:45470400-45471800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
18	chr10:45470400-45472600	Weak transcription	Small Intestine	intestine
19	chr10:45470600-45471400	Enhancers	Placenta Amnion	Placenta Amnion
20	chr10:45470600-45472000	Enhancers	Fetal Lung	lung
21	chr10:45470600-45473600	Weak transcription	Primary T cells from cord blood	blood
22	chr10:45470600-45473800	Enhancers	Fetal Thymus	thymus
23	chr10:45470600-45474000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr10:45470600-45474200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr10:45470800-45471400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr10:45470800-45471400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr10:45470800-45471400	Enhancers	Colonic Mucosa	Colon
28	chr10:45470800-45471400	Enhancers	HUVEC	blood vessel
29	chr10:45470800-45471400	Enhancers	NHEK	skin
30	chr10:45470800-45471600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
31	chr10:45470800-45471600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr10:45470800-45471600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr10:45470800-45471600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr10:45470800-45471600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr10:45470800-45471600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr10:45470800-45471600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr10:45470800-45471600	Enhancers	A549	lung
38	chr10:45470800-45471600	Enhancers	K562	blood
39	chr10:45470800-45471800	Enhancers	Primary hematopoietic stem cells	blood
40	chr10:45470800-45471800	Active TSS	Brain Hippocampus Middle	brain
41	chr10:45470800-45471800	Enhancers	Rectal Mucosa Donor 31	rectum
42	chr10:45470800-45471800	Enhancers	NHDF-Ad	bronchial
43	chr10:45470800-45472000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr10:45470800-45472000	Enhancers	Colon Smooth Muscle	Colon
45	chr10:45470800-45472000	Enhancers	Esophagus	oesophagus
46	chr10:45470800-45472000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
47	chr10:45470800-45472000	Enhancers	Fetal Stomach	stomach
48	chr10:45470800-45472000	Enhancers	Spleen	Spleen
49	chr10:45470800-45472200	Enhancers	Muscle Satellite Cultured Cells	--
50	chr10:45470800-45472200	Enhancers	NH-A	brain

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