Variant report

Variant	rs10851405
Chromosome Location	chr15:41809086-41809087
allele	A/C
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	chr15:41809011-41809291	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:41785345..41788204-chr15:41809016..41810718,2	K562	blood:
2	chr15:41807609..41810088-chr15:41818864..41820649,2	K562	blood:
3	chr15:41785345..41788204-chr15:41808714..41810718,3	K562	blood:

Variant related genes	Relation type
LTK	TF binding region
ENSG00000137825	Chromatin interaction
ENSG00000103932	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1077809	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11070331	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1200340	0.83[EUR][1000 genomes]
rs1867419	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2253936	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2289740	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2777490	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs316622	0.83[ASN][1000 genomes]
rs316623	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3759793	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8035331	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8035575	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]

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	nsv524476	chr15:41689232-41820200	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv904110	chr15:41776692-41813279	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv471241	chr15:41783814-41820200	Active TSS Weak transcription Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv904112	chr15:41806658-41836234	Weak transcription Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10851405	LTK	cis	lung	GTEx

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41801800-41819000	Weak transcription	Hela-S3	cervix
2	chr15:41805200-41809200	Weak transcription	A549	lung
3	chr15:41806000-41809400	Weak transcription	Brain Angular Gyrus	brain
4	chr15:41806200-41809200	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr15:41806200-41809200	Weak transcription	Left Ventricle	heart
6	chr15:41806200-41809600	Weak transcription	Colon Smooth Muscle	Colon
7	chr15:41806200-41809600	Weak transcription	Pancreas	Pancrea
8	chr15:41806200-41809600	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr15:41806200-41809600	Weak transcription	HMEC	breast
10	chr15:41806200-41815400	Weak transcription	NHDF-Ad	bronchial
11	chr15:41806200-41820400	Weak transcription	HSMM	muscle
12	chr15:41806200-41822600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr15:41806400-41809200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr15:41806400-41809200	Weak transcription	NHLF	lung
15	chr15:41806400-41809400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr15:41806400-41809400	Weak transcription	Adipose Nuclei	Adipose
17	chr15:41806400-41809400	Weak transcription	Brain Anterior Caudate	brain
18	chr15:41806400-41809400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr15:41806400-41809400	Weak transcription	Fetal Intestine Large	intestine
20	chr15:41806400-41809400	Weak transcription	Fetal Muscle Trunk	muscle
21	chr15:41806400-41809400	Weak transcription	Psoas Muscle	Psoas
22	chr15:41806400-41809400	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr15:41806400-41809400	Weak transcription	HSMMtube	muscle
24	chr15:41806400-41809600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr15:41806400-41809600	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr15:41806400-41809600	Weak transcription	Esophagus	oesophagus
27	chr15:41806400-41809600	Weak transcription	Lung	lung
28	chr15:41806400-41809600	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr15:41806400-41812400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr15:41806400-41812800	Weak transcription	Colonic Mucosa	Colon
31	chr15:41806400-41815600	Weak transcription	Rectal Smooth Muscle	rectum
32	chr15:41806400-41818600	Weak transcription	Primary B cells from cord blood	blood
33	chr15:41806400-41835200	Weak transcription	Right Atrium	heart
34	chr15:41806600-41809200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr15:41806600-41809200	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr15:41806600-41809200	Weak transcription	Gastric	stomach
37	chr15:41806600-41809200	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr15:41806600-41809400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr15:41806600-41809400	Weak transcription	Primary T cells from cord blood	blood
40	chr15:41806600-41809400	Weak transcription	Aorta	Aorta
41	chr15:41806600-41809400	Weak transcription	Liver	Liver
42	chr15:41806600-41809400	Weak transcription	Brain Hippocampus Middle	brain
43	chr15:41806600-41809400	Weak transcription	Stomach Smooth Muscle	stomach
44	chr15:41806600-41809600	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr15:41806600-41809600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr15:41806600-41809600	Weak transcription	Primary T helper cells PMA-I stimulated	--
47	chr15:41806600-41809600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr15:41806600-41809600	Weak transcription	Spleen	Spleen
49	chr15:41806600-41809800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr15:41806600-41812400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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