Variant report

Variant	rs6695410
Chromosome Location	chr1:119107872-119107873
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10802043	0.84[EUR][1000 genomes]
rs10923621	0.82[EUR][1000 genomes]
rs1936068	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2135565	0.82[EUR][1000 genomes]
rs2659204	0.81[EUR][1000 genomes]
rs9662189	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3494191	chr1:118772550-119719548	Enhancers Strong transcription Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	esv3494192	chr1:118772550-119719548	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv1001577	chr1:119068257-119110725	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv872169	chr1:119079566-119117167	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv3529666	chr1:119107516-119108622	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv3529665	chr1:119107554-119108788	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6695410	IGSF3	cis	parietal	SCAN
rs6695410	CD101	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:119106200-119108400	Enhancers	Placenta Amnion	Placenta Amnion
2	chr1:119106800-119108000	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr1:119106800-119108200	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr1:119106800-119108200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr1:119106800-119108200	Enhancers	Fetal Muscle Leg	muscle
6	chr1:119106800-119108200	Enhancers	Rectal Smooth Muscle	rectum
7	chr1:119107200-119108000	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr1:119107200-119108400	Enhancers	Colon Smooth Muscle	Colon

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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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