Variant report

Variant	rs7748510
Chromosome Location	chr6:87784311-87784312
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs1055409	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1998617	0.95[CEU][hapmap];0.85[MEX][hapmap];0.83[TSI][hapmap];0.83[EUR][1000 genomes]
rs6909630	0.95[CEU][hapmap];0.92[MEX][hapmap];0.83[EUR][1000 genomes]
rs6910649	0.82[EUR][1000 genomes]
rs7738290	0.94[CEU][hapmap];0.90[EUR][1000 genomes]
rs9294363	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9344675	0.95[CEU][hapmap];0.92[MEX][hapmap];0.83[TSI][hapmap];0.84[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	nsv1024751	chr6:87433199-87908721	Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv5385	chr6:87781015-87803663	Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7748510	C6orf162	cis	cerebellum	SCAN
rs7748510	C6orf165	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:87779800-87785200	Enhancers	Fetal Intestine Small	intestine
2	chr6:87782400-87784400	Enhancers	Duodenum Mucosa	Duodenum
3	chr6:87782800-87785200	Enhancers	Fetal Intestine Large	intestine
4	chr6:87783600-87784400	Enhancers	Stomach Mucosa	stomach
5	chr6:87783800-87784400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:87784000-87784400	Enhancers	Rectal Mucosa Donor 31	rectum
7	chr6:87784000-87784400	Enhancers	Sigmoid Colon	Sigmoid Colon
8	chr6:87784000-87784400	Enhancers	Small Intestine	intestine
9	chr6:87784000-87784400	Enhancers	HepG2	liver
10	chr6:87784000-87785200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:87784000-87785200	Enhancers	Adipose Nuclei	Adipose
12	chr6:87784000-87785400	Enhancers	Rectal Mucosa Donor 29	rectum
13	chr6:87784200-87784400	Bivalent Enhancer	H9 Derived Neuron Cultured 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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