Variant report

Variant	rs3181118
Chromosome Location	chr10:97623376-97623377
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11541780	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11542152	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3176887	1.00[CEU][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3176892	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3176893	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3181116	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181125	0.82[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3181127	1.00[CEU][hapmap];0.82[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35168849	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs41291572	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62625035	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7073436	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7097236	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7101227	1.00[CEU][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7900437	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7915682	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7919673	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531923	chr10:97366055-97725757	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv895905	chr10:97513362-97686064	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv895906	chr10:97513362-97703650	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv895907	chr10:97529318-97686064	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv895908	chr10:97544513-97724247	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3181118	TCTN3	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97592600-97632800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr10:97597200-97627200	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr10:97597400-97624600	Weak transcription	Placenta	Placenta
4	chr10:97597400-97627400	Weak transcription	Brain Angular Gyrus	brain
5	chr10:97600600-97628600	Weak transcription	Colonic Mucosa	Colon
6	chr10:97601200-97624600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr10:97601600-97624400	Weak transcription	Fetal Intestine Large	intestine
8	chr10:97601600-97635600	Weak transcription	Fetal Brain Male	brain
9	chr10:97601800-97624600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr10:97601800-97626000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr10:97601800-97626400	Weak transcription	Brain Hippocampus Middle	brain
12	chr10:97601800-97627200	Weak transcription	Liver	Liver
13	chr10:97601800-97635400	Weak transcription	Brain Substantia Nigra	brain
14	chr10:97601800-97647800	Weak transcription	Brain Cingulate Gyrus	brain
15	chr10:97602400-97655400	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr10:97603000-97624800	Weak transcription	Fetal Intestine Small	intestine
17	chr10:97603200-97624800	Weak transcription	Duodenum Mucosa	Duodenum
18	chr10:97609600-97627400	Weak transcription	Brain Anterior Caudate	brain
19	chr10:97610000-97627200	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr10:97610600-97626000	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr10:97615400-97634400	Strong transcription	Primary monocytes fromperipheralblood	blood
22	chr10:97615800-97624400	Strong transcription	Primary B cells from peripheral blood	blood
23	chr10:97615800-97633800	Strong transcription	Primary neutrophils fromperipheralblood	blood
24	chr10:97615800-97634400	Strong transcription	Monocytes-CD14+_RO01746	blood
25	chr10:97618000-97631200	Weak transcription	Psoas Muscle	Psoas
26	chr10:97618400-97626600	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr10:97619000-97631000	Weak transcription	Adipose Nuclei	Adipose
28	chr10:97619400-97624800	Weak transcription	HepG2	liver
29	chr10:97619400-97633000	Weak transcription	Fetal Brain Female	brain
30	chr10:97619600-97655000	Weak transcription	HUVEC	blood vessel
31	chr10:97619800-97633400	Weak transcription	A549	lung
32	chr10:97620000-97626400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr10:97620200-97624600	Strong transcription	Spleen	Spleen
34	chr10:97620200-97625200	Strong transcription	Fetal Stomach	stomach
35	chr10:97620800-97624600	Weak transcription	Fetal Lung	lung
36	chr10:97620800-97626600	Weak transcription	Esophagus	oesophagus
37	chr10:97620800-97633000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr10:97621000-97624600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr10:97621000-97624600	Weak transcription	NHDF-Ad	bronchial
40	chr10:97621000-97624800	Weak transcription	Colon Smooth Muscle	Colon
41	chr10:97621000-97625800	Weak transcription	Left Ventricle	heart
42	chr10:97621000-97628600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr10:97621000-97640600	Weak transcription	Rectal Smooth Muscle	rectum
44	chr10:97621000-97666800	Weak transcription	Gastric	stomach
45	chr10:97621200-97627200	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr10:97621400-97623800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr10:97621600-97623400	Strong transcription	Stomach Smooth Muscle	stomach
48	chr10:97622200-97624600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr10:97622200-97631800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
50	chr10:97622400-97626600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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