Variant report

Variant	rs12661995
Chromosome Location	chr6:39135211-39135212
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10947783	0.92[AFR][1000 genomes]
rs6899384	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6916231	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72861353	0.92[AFR][1000 genomes]
rs7747245	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs7751196	0.83[CEU][hapmap];0.82[AMR][1000 genomes]
rs9369105	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs9380832	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9380833	0.86[JPT][hapmap]
rs9394575	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9470983	0.81[AMR][1000 genomes]
rs9470986	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028088	chr6:38821047-39163549	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv538205	chr6:38821047-39163549	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv830644	chr6:39116530-39325980	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv1022974	chr6:39120271-39277553	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39128800-39136200	Weak transcription	Pancreas	Pancrea
2	chr6:39132200-39137000	Weak transcription	Gastric	stomach
3	chr6:39134200-39135400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
4	chr6:39134200-39135600	Enhancers	Rectal Mucosa Donor 29	rectum
5	chr6:39134400-39135400	Enhancers	Colonic Mucosa	Colon
6	chr6:39134400-39135400	Enhancers	Rectal Mucosa Donor 31	rectum
7	chr6:39134400-39135600	Enhancers	Fetal Intestine Small	intestine
8	chr6:39134400-39138800	Enhancers	Duodenum Mucosa	Duodenum
9	chr6:39134600-39135600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr6:39134600-39136400	Weak transcription	Esophagus	oesophagus
11	chr6:39134600-39139400	Weak transcription	Right Atrium	heart
12	chr6:39134800-39137000	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:39134800-39139400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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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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