Variant report

Variant	rs6495164
Chromosome Location	chr15:33838470-33838471
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1077409	0.80[YRI][hapmap]
rs1435107	1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs1529849	0.80[YRI][hapmap]
rs17236161	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2304381	1.00[ASW][hapmap];0.86[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.87[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.92[TSI][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2596220	1.00[CHB][hapmap];0.92[CHD][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs35030545	0.93[ASN][1000 genomes]
rs3794583	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3829474	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8039078	0.92[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][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	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	esv34041	chr15:33720726-33871487	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	esv34037	chr15:33732616-34049083	Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6495164	FMN1	cis	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33818400-33840800	Weak transcription	Fetal Muscle Leg	muscle
2	chr15:33823800-33844000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr15:33826600-33847800	Weak transcription	Fetal Stomach	stomach
4	chr15:33827400-33877200	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr15:33832600-33839800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr15:33833200-33858400	Weak transcription	Fetal Muscle Trunk	muscle
7	chr15:33834600-33845000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:33834600-33850000	Weak transcription	Colon Smooth Muscle	Colon
9	chr15:33835800-33838600	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr15:33836400-33843200	Weak transcription	Brain Anterior Caudate	brain
11	chr15:33837600-33840600	Weak transcription	Aorta	Aorta
12	chr15:33837800-33838600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
13	chr15:33838200-33838600	Strong transcription	Stomach Smooth Muscle	stomach
14	chr15:33838200-33840200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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Input of quick search could be:

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

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