Variant report

Variant	rs5754377
Chromosome Location	chr22:33410908-33410909
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	chr22:33401819..33404560-chr22:33409923..33412850,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185666	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1012082	0.84[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs114509	0.92[CEU][hapmap];0.84[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs133924	0.92[AFR][1000 genomes]
rs133926	0.92[CEU][hapmap];0.93[CHB][hapmap];0.82[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes]
rs133927	0.92[AFR][1000 genomes]
rs133931	0.92[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap]
rs133934	0.96[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs133936	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs133937	0.96[CEU][hapmap];0.92[CHB][hapmap];0.87[JPT][hapmap];0.91[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs133938	0.96[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs133941	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs133944	0.92[CEU][hapmap];0.84[JPT][hapmap];0.82[AMR][1000 genomes]
rs133945	0.92[CEU][hapmap];0.83[JPT][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs133946	0.92[CEU][hapmap];0.83[JPT][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs133949	0.92[CEU][hapmap];0.83[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs133959	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs133964	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs133965	0.96[CEU][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs133966	1.00[CEU][hapmap];0.93[CHB][hapmap];0.81[JPT][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs133967	0.92[CHB][hapmap];0.83[ASN][1000 genomes]
rs133970	0.93[CHB][hapmap];0.84[ASN][1000 genomes]
rs133974	0.86[CHB][hapmap]
rs137552	0.84[CHB][hapmap]
rs241707	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs241708	0.84[CHB][hapmap];0.82[JPT][hapmap]
rs241709	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs241711	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs241712	0.80[CEU][hapmap];0.93[CHB][hapmap];0.82[JPT][hapmap]
rs241714	0.93[CHB][hapmap];0.81[JPT][hapmap]
rs241715	0.92[CHB][hapmap];0.87[JPT][hapmap]
rs241721	0.81[CEU][hapmap];0.93[CHB][hapmap];0.82[JPT][hapmap]
rs241725	0.86[CHB][hapmap]
rs241727	0.86[CHB][hapmap]
rs241729	0.84[CHB][hapmap]
rs241731	0.86[CHB][hapmap]
rs241732	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs241758	0.84[CHB][hapmap]
rs241760	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs241764	0.84[CHB][hapmap]
rs241767	0.86[CHB][hapmap];0.88[JPT][hapmap]
rs470004	0.84[CEU][hapmap];0.82[JPT][hapmap]
rs470006	0.92[CEU][hapmap]
rs470010	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs470013	0.84[CHB][hapmap]
rs5754371	0.82[AMR][1000 genomes]
rs5754384	0.84[ASN][1000 genomes]
rs739143	0.96[CEU][hapmap];0.92[CHB][hapmap];0.81[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs78506	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.83[EUR][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	nsv531568	chr22:33336868-33480272	Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv531587	chr22:33346710-33809338	Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:33402400-33414200	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr22:33402600-33419400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr22:33402800-33414600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr22:33403000-33420000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr22:33403400-33414000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr22:33403600-33415600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr22:33403800-33414600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr22:33403800-33417600	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr22:33405400-33414600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr22:33406400-33414600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr22:33407400-33417000	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr22:33408200-33411400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr22:33410200-33411200	Active TSS	Placenta	Placenta
14	chr22:33410200-33413000	Weak transcription	HepG2	liver
15	chr22:33410400-33417200	Weak transcription	HUES48 Cell Line	embryonic stem cell

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