Variant report

Variant	rs3828543
Chromosome Location	chr4:100541012-100541013
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10516445	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12639930	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs12641768	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12647188	0.87[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs13105033	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13126189	1.00[ASN][1000 genomes]
rs13130949	0.88[ASN][1000 genomes]
rs1491238	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2306985	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3805337	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4699755	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6532825	0.95[ASN][1000 genomes]
rs6852647	0.88[ASN][1000 genomes]
rs7659550	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7698798	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs881981	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs959247	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs991811	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:100516400-100546200	Strong transcription	Liver	Liver
2	chr4:100518800-100545200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr4:100522600-100545800	Strong transcription	Fetal Intestine Large	intestine
4	chr4:100532800-100545200	Weak transcription	Aorta	Aorta
5	chr4:100534800-100545400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr4:100535000-100542000	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr4:100536800-100545200	Weak transcription	Stomach Smooth Muscle	stomach
8	chr4:100537000-100543400	Weak transcription	Colon Smooth Muscle	Colon
9	chr4:100537600-100543400	Weak transcription	Psoas Muscle	Psoas
10	chr4:100537600-100544200	Strong transcription	HepG2	liver
11	chr4:100538200-100541800	Weak transcription	Fetal Intestine Small	intestine
12	chr4:100538200-100556000	Weak transcription	Fetal Muscle Leg	muscle
13	chr4:100539400-100545200	Weak transcription	Rectal Smooth Muscle	rectum
14	chr4:100539800-100544200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr4:100541000-100544200	Strong transcription	Duodenum Mucosa	Duodenum

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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