Variant report

Variant	rs10483884
Chromosome Location	chr14:78149694-78149695
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SNW1-6	chr14:78149545-78149916	NONHSAT037999

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11621593	0.86[GIH][hapmap]
rs12433742	1.00[ASN][1000 genomes]
rs2003594	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2111829	0.86[GIH][hapmap]
rs28393221	0.94[EUR][1000 genomes]
rs55734921	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6493	0.86[GIH][hapmap]
rs7151836	0.94[EUR][1000 genomes]
rs72683265	1.00[ASN][1000 genomes]
rs72683267	1.00[ASN][1000 genomes]
rs72685236	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72685267	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72685288	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72687212	1.00[ASN][1000 genomes]
rs72687241	0.82[EUR][1000 genomes]
rs72687256	0.80[EUR][1000 genomes]
rs8015796	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8015938	0.82[EUR][1000 genomes]

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	esv2758362	chr14:78074180-78262572	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	esv2759998	chr14:78074180-78262572	Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	esv2757575	chr14:78104897-78212462	Strong transcription Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	esv34940	chr14:78104897-78222798	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv521287	chr14:78108003-78211225	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv869872	chr14:78119527-78161340	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	esv3693172	chr14:78130479-78152921	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
8	nsv976357	chr14:78148706-78150357	Strong transcription Weak transcription Enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10483884	GAP43	trans	lymphoblastoid	seeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:78127400-78173200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr14:78128000-78157800	Weak transcription	Fetal Brain Male	brain
3	chr14:78134400-78163400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr14:78135200-78156200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr14:78136200-78162800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr14:78137800-78161200	Weak transcription	Fetal Heart	heart
7	chr14:78138000-78171800	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr14:78138200-78154400	Strong transcription	Dnd41	blood
9	chr14:78140200-78156600	Weak transcription	K562	blood
10	chr14:78140400-78157800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr14:78140400-78160400	Weak transcription	Fetal Kidney	kidney
12	chr14:78140400-78172400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr14:78140600-78158600	Weak transcription	Esophagus	oesophagus
14	chr14:78140600-78173200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr14:78141200-78153600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr14:78141200-78160400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr14:78141200-78162800	Weak transcription	Colonic Mucosa	Colon
18	chr14:78141400-78156400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr14:78141400-78156600	Weak transcription	Brain Substantia Nigra	brain
20	chr14:78141400-78157400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr14:78141600-78155800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr14:78141600-78156600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr14:78142200-78156600	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr14:78142200-78157600	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr14:78142200-78161200	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr14:78142400-78154200	Weak transcription	GM12878-XiMat	blood
27	chr14:78142600-78162200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr14:78142600-78162800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr14:78142800-78155800	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr14:78143000-78152600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr14:78145000-78151000	Weak transcription	Primary T helper cells PMA-I stimulated	--
32	chr14:78145400-78158600	Weak transcription	Spleen	Spleen
33	chr14:78146200-78150200	Weak transcription	Fetal Muscle Leg	muscle
34	chr14:78146200-78152800	Weak transcription	Brain Germinal Matrix	brain
35	chr14:78146400-78150200	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr14:78146400-78150400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr14:78146400-78152600	Weak transcription	Fetal Brain Female	brain
38	chr14:78146400-78153400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr14:78146400-78157800	Weak transcription	Fetal Lung	lung
40	chr14:78146400-78160000	Weak transcription	Brain Hippocampus Middle	brain
41	chr14:78146400-78161800	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr14:78146600-78150200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
43	chr14:78146600-78150200	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr14:78146600-78150400	Weak transcription	Primary T helper cells fromperipheralblood	blood
45	chr14:78146600-78150400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr14:78146600-78153200	Weak transcription	HUES64 Cell Line	embryonic stem cell
47	chr14:78146800-78155800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
48	chr14:78147000-78157800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr14:78147400-78149800	Enhancers	Stomach Mucosa	stomach
50	chr14:78147400-78151400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood

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