Variant report

Variant	rs9816377
Chromosome Location	chr3:142357223-142357224
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1357530	0.87[YRI][hapmap]
rs1983434	0.87[YRI][hapmap]
rs4637328	0.95[CEU][hapmap];0.88[CHD][hapmap];0.87[TSI][hapmap];0.86[EUR][1000 genomes]
rs6440098	0.87[YRI][hapmap]
rs6775813	0.87[YRI][hapmap]
rs7615316	0.87[YRI][hapmap]
rs9832606	0.83[YRI][hapmap]
rs9843148	0.91[CEU][hapmap]

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	nsv877560	chr3:142132749-142362179	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv932989	chr3:142204208-142423305	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9816377	XRN1	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142343400-142366400	Weak transcription	Fetal Intestine Small	intestine
2	chr3:142348800-142364800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:142355400-142363600	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr3:142355400-142364000	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr3:142357000-142358000	Weak transcription	Fetal Brain Male	brain
6	chr3:142357000-142371400	Weak transcription	Aorta	Aorta
7	chr3:142357200-142357400	Enhancers	Pancreas	Pancrea

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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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