Variant report

Variant	rs62000092
Chromosome Location	chr15:58008774-58008775
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 4 )
Associated
traits (count: 2 )

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	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

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs62000092	Gcom1///GRINL1A	Cis_1M	lymphoblastoid	RTeQTL
rs62000092	Gcom1///GRINL1A	trans	lymphoblastoid	RTeQTL

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57999800-58014400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:57999800-58022400	Weak transcription	Esophagus	oesophagus
3	chr15:58000200-58015000	Weak transcription	Stomach Mucosa	stomach
4	chr15:58000800-58011400	Strong transcription	HUES48 Cell Line	embryonic stem cell
5	chr15:58000800-58012200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr15:58000800-58012800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr15:58001200-58010200	Strong transcription	HUES6 Cell Line	embryonic stem cell
8	chr15:58001400-58012800	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr15:58001400-58013000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr15:58001600-58012800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr15:58001800-58010000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr15:58002400-58011200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr15:58005400-58014200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr15:58005400-58014400	Weak transcription	Brain Germinal Matrix	brain
15	chr15:58005400-58019200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr15:58005400-58020000	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr15:58005800-58014200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr15:58006000-58014600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr15:58006200-58014200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr15:58006600-58010000	Weak transcription	Colonic Mucosa	Colon
21	chr15:58006600-58013400	Weak transcription	Colon Smooth Muscle	Colon
22	chr15:58006600-58020400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr15:58006800-58009800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr15:58006800-58009800	Weak transcription	Thymus	Thymus
25	chr15:58006800-58010200	Weak transcription	Fetal Stomach	stomach
26	chr15:58006800-58011200	Weak transcription	Small Intestine	intestine
27	chr15:58006800-58012600	Weak transcription	Ovary	ovary
28	chr15:58006800-58012600	Weak transcription	NH-A	brain
29	chr15:58006800-58012800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr15:58006800-58012800	Weak transcription	NHDF-Ad	bronchial
31	chr15:58006800-58013600	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr15:58006800-58013600	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr15:58006800-58014000	Weak transcription	Pancreas	Pancrea
34	chr15:58006800-58014400	Weak transcription	Gastric	stomach
35	chr15:58006800-58014600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
36	chr15:58006800-58014800	Weak transcription	Spleen	Spleen
37	chr15:58006800-58017200	Weak transcription	Fetal Kidney	kidney
38	chr15:58006800-58017200	Weak transcription	Rectal Smooth Muscle	rectum
39	chr15:58006800-58019000	Weak transcription	NHLF	lung
40	chr15:58006800-58025000	Weak transcription	Brain Angular Gyrus	brain
41	chr15:58006800-58029400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr15:58006800-58037800	Weak transcription	Aorta	Aorta
43	chr15:58007000-58009800	Weak transcription	Primary T cells from cord blood	blood
44	chr15:58007000-58009800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr15:58007000-58009800	Weak transcription	Brain Hippocampus Middle	brain
46	chr15:58007000-58009800	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr15:58007000-58009800	Weak transcription	HSMM	muscle
48	chr15:58007000-58010000	Weak transcription	Left Ventricle	heart
49	chr15:58007000-58010200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr15:58007000-58010200	Weak transcription	Fetal Intestine Small	intestine

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