Variant report

Variant	rs11902733
Chromosome Location	chr6:54803538-54803539
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11674632	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11677795	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11679835	0.88[EUR][1000 genomes]
rs11691073	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11694321	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11893310	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12105780	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12989392	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12989938	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12995219	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12998320	0.98[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs13000846	0.81[EUR][1000 genomes]
rs13002817	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13003130	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13005615	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13023973	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13031794	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2111459	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2356707	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs36140780	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs67077741	0.90[AMR][1000 genomes];0.97[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	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2763553	chr6:54687979-54820487	Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11902733	METTL8	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54785600-54805000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:54789800-54810200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:54797000-54811800	Weak transcription	Esophagus	oesophagus
4	chr6:54797600-54804600	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:54798000-54804600	Weak transcription	Duodenum Mucosa	Duodenum
6	chr6:54798800-54804800	Weak transcription	Fetal Intestine Large	intestine
7	chr6:54798800-54815600	Weak transcription	Fetal Intestine Small	intestine
8	chr6:54800400-54807600	Weak transcription	Small Intestine	intestine
9	chr6:54801000-54805000	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr6:54801200-54804400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr6:54801600-54804800	Weak transcription	Hela-S3	cervix
12	chr6:54802200-54803600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr6:54802200-54809600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr6:54802600-54804200	Weak transcription	NHEK	skin
15	chr6:54802600-54804600	Weak transcription	HMEC	breast
16	chr6:54802600-54810800	Weak transcription	Pancreas	Pancrea
17	chr6:54803200-54804600	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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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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