Variant report

Variant	rs34678000
Chromosome Location	chr4:100510491-100510492
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:100482078..100484987-chr4:100507719..100510909,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145331	Chromatin interaction
ENSG00000138823	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11097666	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13121590	0.84[EUR][1000 genomes]
rs13129571	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13135675	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13135826	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13142452	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13151234	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17029189	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17029211	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17029213	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17029215	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17029260	0.97[EUR][1000 genomes]
rs17029263	0.97[EUR][1000 genomes]
rs17029264	0.83[EUR][1000 genomes]
rs34135026	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34246356	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34734558	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34756677	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34777713	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34870956	0.97[EUR][1000 genomes]
rs34874297	0.97[EUR][1000 genomes]
rs35074439	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35189300	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35391161	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35402611	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35561084	0.90[EUR][1000 genomes]
rs35595171	0.90[EUR][1000 genomes]
rs35661838	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35824615	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35826214	0.97[EUR][1000 genomes]
rs35992230	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs41275719	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6532821	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6825904	0.97[EUR][1000 genomes]
rs6851824	0.97[EUR][1000 genomes]
rs71612697	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71612700	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71612702	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71614603	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71614604	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs71619723	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7665414	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7667001	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7688278	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7695727	0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879656	chr4:99976646-100533722	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv933074	chr4:100460951-100630600	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	esv3410965	chr4:100509154-100511252	Enhancers Strong transcription Weak transcription Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:100506200-100516000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr4:100506800-100510800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr4:100507800-100533800	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr4:100508800-100514000	Strong transcription	HepG2	liver
5	chr4:100509000-100511400	Weak transcription	Duodenum Mucosa	Duodenum
6	chr4:100509000-100516000	Weak transcription	Aorta	Aorta
7	chr4:100509600-100510600	Genic enhancers	Fetal Intestine Large	intestine
8	chr4:100509800-100518200	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr4:100510200-100510600	Genic enhancers	Fetal Intestine Small	intestine
10	chr4:100510400-100511600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr4:100510400-100514000	Strong transcription	Liver	Liver

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