Variant report

Variant	rs17085962
Chromosome Location	chr9:85638649-85638650
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C9orf103-7	chr9:85634340-85642318	predAs_engstrom06_AI205792_1

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs17085959	0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs17085961	0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs17085963	0.93[YRI][hapmap];0.81[AFR][1000 genomes]
rs17085969	0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs17085973	0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs17085980	0.86[YRI][hapmap]
rs17085982	0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs17085986	0.88[AFR][1000 genomes]
rs17085988	0.81[YRI][hapmap];0.88[AFR][1000 genomes]
rs56751483	0.89[AFR][1000 genomes]
rs58323931	0.89[AFR][1000 genomes]
rs58387961	0.88[AFR][1000 genomes]
rs59113785	0.89[AFR][1000 genomes]
rs59707822	0.88[AFR][1000 genomes]
rs7043044	0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs7043189	0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs7043478	0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs73467586	0.89[AFR][1000 genomes]
rs73467588	0.89[AFR][1000 genomes]
rs73467594	0.89[AFR][1000 genomes]
rs73467600	0.89[AFR][1000 genomes]
rs73469405	0.86[AFR][1000 genomes]
rs73469407	0.86[AFR][1000 genomes]
rs73469408	0.86[AFR][1000 genomes]
rs73469410	0.89[AFR][1000 genomes]
rs73469413	0.89[AFR][1000 genomes]
rs73469415	0.89[AFR][1000 genomes]
rs73469417	0.89[AFR][1000 genomes]
rs73469420	0.89[AFR][1000 genomes]
rs73469421	0.89[AFR][1000 genomes]
rs73469424	0.88[AFR][1000 genomes]
rs73469427	0.88[AFR][1000 genomes]
rs73469429	0.86[AFR][1000 genomes]
rs73469430	0.88[AFR][1000 genomes]
rs73469432	0.88[AFR][1000 genomes]
rs73469434	0.89[AFR][1000 genomes]
rs73469435	0.89[AFR][1000 genomes]
rs73469438	0.89[AFR][1000 genomes]
rs73469447	0.89[AFR][1000 genomes]
rs73469468	0.88[AFR][1000 genomes]
rs73469475	0.88[AFR][1000 genomes]
rs73469481	0.88[AFR][1000 genomes]
rs73469484	0.88[AFR][1000 genomes]
rs73469487	0.88[AFR][1000 genomes]
rs73469492	0.84[AFR][1000 genomes]
rs73469496	0.88[AFR][1000 genomes]
rs73469497	0.88[AFR][1000 genomes]
rs73469499	0.88[AFR][1000 genomes]
rs73471405	0.88[AFR][1000 genomes]
rs73471407	0.88[AFR][1000 genomes]
rs73471410	0.88[AFR][1000 genomes]
rs7470762	0.88[AFR][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	nsv1050771	chr9:85416931-85643417	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv893511	chr9:85495968-85833127	Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85603200-85643800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr9:85610800-85642000	Weak transcription	Fetal Intestine Large	intestine
3	chr9:85613600-85643400	Weak transcription	Colonic Mucosa	Colon
4	chr9:85617200-85645800	Weak transcription	Stomach Mucosa	stomach
5	chr9:85621000-85645400	Weak transcription	Gastric	stomach
6	chr9:85623600-85643200	Weak transcription	Fetal Intestine Small	intestine
7	chr9:85628600-85643400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr9:85629000-85638800	Weak transcription	Fetal Stomach	stomach
9	chr9:85630000-85641600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr9:85635600-85641400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr9:85635600-85641800	Weak transcription	Esophagus	oesophagus
12	chr9:85635800-85639400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr9:85636200-85639800	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr9:85636200-85641400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr9:85636400-85643600	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr9:85637400-85641400	Weak transcription	Pancreas	Pancrea
17	chr9:85637400-85643200	Weak transcription	Rectal Mucosa Donor 31	rectum

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