Variant report

Variant	rs2341337
Chromosome Location	chr3:196309736-196309737
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:196304153..196307094-chr3:196308017..196309904,2	MCF-7	breast:
2	chr3:196308524..196310662-chr3:196315785..196317818,3	MCF-7	breast:
3	chr3:196294648..196297345-chr3:196309580..196313995,4	K562	blood:
4	chr3:196307955..196310042-chr3:196312339..196313885,2	K562	blood:
5	chr3:196309053..196310640-chr3:196320731..196323524,2	K562	blood:
6	chr3:196308084..196310672-chr3:196311210..196312860,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174013	Chromatin interaction
ENSG00000185798	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11185546	0.93[CEU][hapmap];0.86[CHB][hapmap];0.87[EUR][1000 genomes]
rs12485589	0.94[EUR][1000 genomes]
rs12634928	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12636646	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12636666	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[EUR][1000 genomes]
rs1872353	0.93[CEU][hapmap];0.83[CHB][hapmap];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34676641	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35827219	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66570007	0.86[EUR][1000 genomes]
rs6764637	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6791472	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6808029	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7648453	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9825103	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9870529	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.89[YRI][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003194	chr3:195960270-196342423	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv536894	chr3:195960270-196342423	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	nsv1003066	chr3:196098763-196414159	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
4	nsv948681	chr3:196148055-197007546	Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
5	nsv1010483	chr3:196210054-196319543	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	nsv536896	chr3:196210054-196319543	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv1014692	chr3:196242249-196531824	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
8	nsv878187	chr3:196245603-196554790	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
9	nsv491864	chr3:196263064-196468533	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
10	nsv829828	chr3:196268121-196463641	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
11	nsv1010643	chr3:196288064-196788645	Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2341337	FBXO45	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:196296400-196311000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:196296600-196320200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:196296800-196311000	Weak transcription	Placenta	Placenta
4	chr3:196296800-196316800	Weak transcription	Right Ventricle	heart
5	chr3:196297000-196310000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr3:196297000-196310800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:196297000-196311000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr3:196297000-196311000	Weak transcription	NH-A	brain
9	chr3:196297000-196314400	Weak transcription	Brain Anterior Caudate	brain
10	chr3:196297000-196316000	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr3:196297000-196316200	Weak transcription	Right Atrium	heart
12	chr3:196297000-196317000	Weak transcription	NHLF	lung
13	chr3:196297000-196317800	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr3:196297000-196318000	Weak transcription	Colonic Mucosa	Colon
15	chr3:196297000-196320400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:196297200-196311000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr3:196297200-196311000	Weak transcription	Colon Smooth Muscle	Colon
18	chr3:196297200-196311000	Weak transcription	Stomach Mucosa	stomach
19	chr3:196297200-196311800	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr3:196297200-196312400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr3:196297200-196313200	Weak transcription	Fetal Kidney	kidney
22	chr3:196297200-196315600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr3:196297200-196316800	Weak transcription	Brain Angular Gyrus	brain
24	chr3:196297200-196323000	Weak transcription	Rectal Smooth Muscle	rectum
25	chr3:196297400-196311000	Weak transcription	Primary B cells from cord blood	blood
26	chr3:196297400-196311000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr3:196297400-196311000	Weak transcription	Fetal Heart	heart
28	chr3:196297400-196311000	Weak transcription	Gastric	stomach
29	chr3:196297400-196311000	Weak transcription	Psoas Muscle	Psoas
30	chr3:196297400-196313800	Weak transcription	Small Intestine	intestine
31	chr3:196297400-196318800	Weak transcription	Pancreas	Pancrea
32	chr3:196298000-196319400	Weak transcription	Fetal Brain Male	brain
33	chr3:196298600-196313000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr3:196299600-196311200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr3:196303000-196311600	Strong transcription	Primary T cells from cord blood	blood
36	chr3:196303400-196316400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr3:196304000-196314200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr3:196304200-196312000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr3:196304200-196314000	Strong transcription	Primary monocytes fromperipheralblood	blood
40	chr3:196304200-196314200	Strong transcription	Dnd41	blood
41	chr3:196304400-196310000	Strong transcription	HUES6 Cell Line	embryonic stem cell
42	chr3:196304400-196310000	Strong transcription	Primary T cells fromperipheralblood	blood
43	chr3:196304400-196310200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr3:196304400-196311800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr3:196304400-196313600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
46	chr3:196304400-196313600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr3:196304400-196313600	Strong transcription	Fetal Thymus	thymus
48	chr3:196304400-196313600	Strong transcription	Rectal Mucosa Donor 29	rectum
49	chr3:196304400-196313800	Strong transcription	Primary T helper cells fromperipheralblood	blood
50	chr3:196304400-196314000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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