Variant report

Variant	rs35267287
Chromosome Location	chr15:44167187-44167188
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs2412821	0.82[AFR][1000 genomes]
rs2729494	0.93[AFR][1000 genomes]
rs2918943	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2918947	0.83[AFR][1000 genomes]
rs2930531	0.90[AFR][1000 genomes]
rs3102448	0.80[AFR][1000 genomes]
rs495880	0.91[AFR][1000 genomes]
rs514311	0.93[AFR][1000 genomes]
rs528764	0.93[AFR][1000 genomes]
rs541871	0.93[AFR][1000 genomes]
rs678084	0.86[AFR][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	nsv1037786	chr15:43888926-44318587	Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv542370	chr15:43888926-44318587	Weak transcription Genic enhancers Flanking Active TSS Active TSS Enhancers Strong transcription 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 miRNA target site	90 gene(s)	inside rSNPs	diseases
3	nsv431387	chr15:43929378-44862930	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	158 gene(s)	inside rSNPs	diseases
4	nsv931051	chr15:43988761-44833518	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	154 gene(s)	inside rSNPs	diseases
5	nsv1050263	chr15:44093927-44204047	Strong transcription Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs35267287	TUBGCP4	cis	Artery Tibial	GTEx

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:44119600-44169400	Weak transcription	Fetal Intestine Large	intestine
2	chr15:44119600-44172800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:44119600-44181800	Weak transcription	Small Intestine	intestine
4	chr15:44119600-44183200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr15:44121000-44177600	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr15:44128200-44167800	Weak transcription	Ovary	ovary
7	chr15:44128600-44167800	Weak transcription	Colon Smooth Muscle	Colon
8	chr15:44131200-44167600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr15:44144800-44181000	Weak transcription	HepG2	liver
10	chr15:44146800-44181600	Weak transcription	Gastric	stomach
11	chr15:44147600-44172000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr15:44150600-44174600	Strong transcription	Dnd41	blood
13	chr15:44151600-44171200	Weak transcription	Placenta	Placenta
14	chr15:44151600-44181600	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr15:44152000-44172800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr15:44152600-44167800	Weak transcription	Aorta	Aorta
17	chr15:44152600-44168000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr15:44152600-44168600	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr15:44152600-44169600	Weak transcription	Lung	lung
20	chr15:44152600-44180800	Weak transcription	Duodenum Mucosa	Duodenum
21	chr15:44153800-44172000	Weak transcription	Stomach Smooth Muscle	stomach
22	chr15:44156800-44169600	Weak transcription	NHDF-Ad	bronchial
23	chr15:44156800-44206400	Weak transcription	Fetal Brain Male	brain
24	chr15:44157400-44172200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr15:44158200-44174000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr15:44158600-44169600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr15:44158600-44172800	Weak transcription	Primary B cells from cord blood	blood
28	chr15:44158600-44180800	Weak transcription	Fetal Lung	lung
29	chr15:44158800-44173200	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr15:44159000-44167600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr15:44159000-44170400	Weak transcription	Primary T helper cells PMA-I stimulated	--
32	chr15:44159000-44171800	Weak transcription	Adipose Nuclei	Adipose
33	chr15:44159000-44172800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr15:44160200-44172800	Weak transcription	Primary B cells from peripheral blood	blood
35	chr15:44161000-44167400	Strong transcription	HUES48 Cell Line	embryonic stem cell
36	chr15:44161000-44167800	Weak transcription	Primary T helper cells fromperipheralblood	blood
37	chr15:44161400-44169400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr15:44161600-44172400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr15:44162200-44171800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr15:44162200-44186000	Weak transcription	HSMM	muscle
41	chr15:44162400-44171600	Weak transcription	Fetal Muscle Leg	muscle
42	chr15:44163000-44179400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr15:44163400-44177200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
44	chr15:44163600-44167400	Strong transcription	Fetal Brain Female	brain
45	chr15:44164000-44175400	Weak transcription	Primary monocytes fromperipheralblood	blood
46	chr15:44164800-44176000	Weak transcription	K562	blood
47	chr15:44165000-44167200	Strong transcription	Thymus	Thymus
48	chr15:44165000-44168200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr15:44165000-44169400	Weak transcription	Primary T cells from cord blood	blood
50	chr15:44165000-44170400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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