Variant report

Variant	rs55890929
Chromosome Location	chr15:33160667-33160668
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:33152788..33155505-chr15:33160660..33163285,2	K562	blood:
2	chr15:33159839..33162457-chr15:33167259..33169460,2	K562	blood:

Variant related genes	Relation type
ENSG00000248905	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1258730	1.00[EUR][1000 genomes]
rs1258733	1.00[EUR][1000 genomes]
rs1258759	1.00[EUR][1000 genomes]
rs13379988	1.00[EUR][1000 genomes]
rs16959629	1.00[EUR][1000 genomes]
rs3110556	1.00[EUR][1000 genomes]
rs56252644	1.00[EUR][1000 genomes]
rs60003861	1.00[EUR][1000 genomes]
rs74011975	1.00[EUR][1000 genomes]
rs74011979	1.00[EUR][1000 genomes]
rs74012232	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422296	chr15:32798938-33221215	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv456785	chr15:32926076-33352989	Genic enhancers Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv568913	chr15:32926076-33352989	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv832962	chr15:33111517-33239736	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv903978	chr15:33144202-33308641	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription 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	4 gene(s)	inside rSNPs	diseases
6	nsv903979	chr15:33144202-33550256	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv1041609	chr15:33148035-33355999	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv542339	chr15:33148035-33355999	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
9	nsv903980	chr15:33149087-33264201	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	nsv1052966	chr15:33149753-33541951	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
11	nsv542340	chr15:33149753-33541951	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33131800-33164800	Weak transcription	Pancreas	Pancrea
2	chr15:33138800-33190600	Weak transcription	Thymus	Thymus
3	chr15:33139600-33190600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr15:33142600-33168200	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr15:33147000-33191400	Weak transcription	Lung	lung
6	chr15:33149000-33202000	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr15:33149600-33169600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr15:33153800-33173200	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr15:33154400-33164000	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr15:33154400-33164600	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr15:33154400-33173800	Weak transcription	Placenta	Placenta
12	chr15:33154400-33192800	Weak transcription	Colonic Mucosa	Colon
13	chr15:33154400-33216800	Weak transcription	Fetal Thymus	thymus
14	chr15:33155000-33208200	Weak transcription	Fetal Kidney	kidney
15	chr15:33155200-33160800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr15:33155200-33164400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr15:33155200-33164800	Weak transcription	Ovary	ovary
18	chr15:33156600-33164000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr15:33157200-33163800	Weak transcription	Brain Angular Gyrus	brain
20	chr15:33157400-33163800	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr15:33157800-33161200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr15:33158600-33160800	Enhancers	Pancreatic Islets	Pancreatic Islet
23	chr15:33158800-33162000	Enhancers	Muscle Satellite Cultured Cells	--
24	chr15:33159400-33161800	Weak transcription	Gastric	stomach
25	chr15:33159400-33163200	Weak transcription	Fetal Stomach	stomach
26	chr15:33159400-33164200	Weak transcription	Rectal Smooth Muscle	rectum
27	chr15:33159400-33164400	Weak transcription	Colon Smooth Muscle	Colon
28	chr15:33159400-33164400	Weak transcription	Fetal Lung	lung
29	chr15:33159400-33166600	Weak transcription	Stomach Mucosa	stomach
30	chr15:33159600-33161200	Weak transcription	Stomach Smooth Muscle	stomach
31	chr15:33159600-33161800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr15:33159600-33161800	Weak transcription	HSMMtube	muscle
33	chr15:33159600-33165600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
34	chr15:33159800-33161800	Weak transcription	K562	blood
35	chr15:33159800-33162000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr15:33159800-33164400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr15:33159800-33165200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr15:33159800-33169400	Weak transcription	HUVEC	blood vessel
39	chr15:33160000-33162600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr15:33160000-33164800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr15:33160000-33201800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr15:33160200-33161000	Weak transcription	NH-A	brain
43	chr15:33160200-33161200	Strong transcription	HSMM	muscle
44	chr15:33160200-33161200	Weak transcription	NHDF-Ad	bronchial
45	chr15:33160200-33161200	Weak transcription	NHLF	lung
46	chr15:33160200-33162800	Enhancers	A549	lung
47	chr15:33160400-33161800	Weak transcription	Osteobl	bone
48	chr15:33160400-33164600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr15:33160400-33166600	Weak transcription	Monocytes-CD14+_RO01746	blood
50	chr15:33160600-33162200	Strong transcription	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links