Variant report

Variant	rs11854917
Chromosome Location	chr15:57982561-57982562
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:57982552-57983136	A549	lung:	n/a	n/a

Variant related genes	Relation type
GCOM1	TF binding region

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

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs10444802	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4774980	0.82[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv530682	chr15:57912502-58108285	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1038667	chr15:57933076-58481870	Flanking Active TSS Enhancers Genic enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv542400	chr15:57933076-58481870	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	esv3405199	chr15:57979060-57982708	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	esv3423145	chr15:57979460-57982608	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	esv3376567	chr15:57980485-57983033	Genic enhancers Weak transcription Enhancers Strong transcription ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
8	esv3421352	chr15:57980885-57983433	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11854917	Gcom1///GRINL1A	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57933400-57982600	Weak transcription	Esophagus	oesophagus
2	chr15:57959600-57982600	Weak transcription	Lung	lung
3	chr15:57960800-57985000	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr15:57968200-57983600	Weak transcription	Gastric	stomach
5	chr15:57973000-57984600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr15:57975600-57982600	Weak transcription	Right Atrium	heart
7	chr15:57975600-57986600	Weak transcription	Rectal Smooth Muscle	rectum
8	chr15:57975800-57986400	Weak transcription	Colon Smooth Muscle	Colon
9	chr15:57977200-57982600	Weak transcription	Adipose Nuclei	Adipose
10	chr15:57977200-57984800	Weak transcription	Duodenum Mucosa	Duodenum
11	chr15:57977400-57982600	Weak transcription	Pancreas	Pancrea
12	chr15:57978200-57983600	Weak transcription	Spleen	Spleen
13	chr15:57978400-57983800	Weak transcription	Fetal Kidney	kidney
14	chr15:57978400-57984600	Weak transcription	Fetal Stomach	stomach
15	chr15:57978400-57985000	Weak transcription	Fetal Intestine Large	intestine
16	chr15:57978800-57984400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr15:57979200-57982800	Weak transcription	Aorta	Aorta
18	chr15:57979200-57983200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr15:57979200-57984600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr15:57979200-57984600	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr15:57979200-57986200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr15:57979200-57998200	Weak transcription	Fetal Intestine Small	intestine
23	chr15:57982200-57983600	Genic enhancers	Fetal Heart	heart
24	chr15:57982200-57984600	Weak transcription	Fetal Muscle Leg	muscle
25	chr15:57982400-57983000	Genic enhancers	Right Ventricle	heart
26	chr15:57982400-57983800	Enhancers	Ovary	ovary
27	chr15:57982400-57984000	Genic enhancers	Left Ventricle	heart

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